Patch ESXi Host using zip file

Patch is normally done by Update Manager. But after re-install, please update patch using zip file to restore config.

1. Upload the zip file to the datastore (Browse datastore > Files > Upload Files)
2. Once file is uploaded perform below:

Check Products in Zip file:

~] esxcli software sources profile list -d /vmfs/volumes/562a8a24-652fe97c-cc67-0025b5a1a016/ESXi600-201605001.zip
Name                             Vendor        Acceptance Level
-------------------------------  ------------  ----------------
ESXi-6.0.0-20160504001-no-tools  VMware, Inc.  PartnerSupported
ESXi-6.0.0-20160504001-standard  VMware, Inc.  PartnerSupported

Dry run the patch install to check if there is any error:

~] esxcli software profile update -d /vmfs/volumes/562a8a24-652fe97c-cc67-0025b5a1a016/ESXi600-201605001.zip -p ESXi-6.0.0-2016050400
1-standard --dry-run
Update Result
Message: Dryrun only, host not changed. The following installers will be applied: [BootBankInstaller]
Reboot Required: true
VIBs Installed: VMware_bootbank_esx-base_6.0.0-2.37.3825889, VMware_bootbank_vsan_6.0.0-2.37.3825891, VMware_bootbank_vsanhealth_6.0.0-3000000.3.0.2.37.3825892
VIBs Removed: VMware_bootbank_esx-base_6.0.0-2.34.3620759, VMware_bootbank_vsan_6.0.0-2.34.3563498, VMware_bootbank_vsanhealth_6.0.0-3000000.3.0.2.34.3544323
VIBs Skipped: VMWARE_bootbank_mtip32xx-native_3.8.5-1vmw.600.0.0.2494585, VMware_bootbank_ata-pata-amd_0.3.10-3vmw.600.0.0.2494585, VMware_bootbank_ata-pata-atiixp_0.4.6-4vmw.600.0.0.2494585, VMware_bootbank_ata-pata-cmd64x_0.2.5-3vmw.600.0.0.2494585, VMware_bootbank_ata-pata-hpt3x2n_0.3.4-3vmw.600.0.0.2494585, VMware_bootbank_ata-pata-pdc2027x_1.0-3vmw.600.0.0.2494585, VMware_bootbank_ata-pata-serverworks_0.4.3-3vmw.600.0.0.2494585, VMware_bootbank_ata-pata-sil680_0.4.8-3vmw.600.0.0.2494585, VMware_bootbank_ata-pata-via_0.3.3-2vmw.600.0.0.2494585, VMware_bootbank_block-cciss_3.6.14-10vmw.600.0.0.2494585, VMware_bootbank_cpu-microcode_6.0.0-0.0.2494585, VMware_bootbank_ehci-ehci-hcd_1.0-3vmw.600.2.34.3620759, VMware_bootbank_elxnet_10.2.309.6v-1vmw.600.0.0.2494585, VMware_bootbank_emulex-esx-elxnetcli_10.2.309.6v-0.0.2494585, VMware_bootbank_esx-dvfilter-generic-fastpath_6.0.0-0.0.2494585, VMware_bootbank_esx-tboot_6.0.0-2.34.3620759, VMware_bootbank_esx-ui_1.0.0-3617585, VMware_bootbank_esx-xserver_6.0.0-0.0.2494585, VMware_bootbank_ima-qla4xxx_2.02.18-1vmw.600.0.0.2494585, VMware_bootbank_ipmi-ipmi-devintf_39.1-4vmw.600.0.0.2494585, VMware_bootbank_ipmi-ipmi-msghandler_39.1-4vmw.600.0.0.2494585, VMware_bootbank_ipmi-ipmi-si-drv_39.1-4vmw.600.0.0.2494585, VMware_bootbank_lpfc_10.2.309.8-2vmw.600.0.0.2494585, VMware_bootbank_lsi-mr3_6.605.08.00-7vmw.600.1.17.3029758, VMware_bootbank_lsi-msgpt3_06.255.12.00-8vmw.600.1.17.3029758, VMware_bootbank_lsu-hp-hpsa-plugin_1.0.0-1vmw.600.0.0.2494585, VMware_bootbank_lsu-lsi-lsi-mr3-plugin_1.0.0-2vmw.600.0.11.2809209, VMware_bootbank_lsu-lsi-lsi-msgpt3-plugin_1.0.0-1vmw.600.0.0.2494585, VMware_bootbank_lsu-lsi-megaraid-sas-plugin_1.0.0-2vmw.600.0.11.2809209, VMware_bootbank_lsu-lsi-mpt2sas-plugin_1.0.0-4vmw.600.1.17.3029758, VMware_bootbank_lsu-lsi-mptsas-plugin_1.0.0-1vmw.600.0.0.2494585, VMware_bootbank_misc-cnic-register_1.78.75.v60.7-1vmw.600.0.0.2494585, VMware_bootbank_misc-drivers_6.0.0-2.34.3620759, VMware_bootbank_net-bnx2_2.2.4f.v60.10-1vmw.600.0.0.2494585, VMware_bootbank_net-bnx2x_1.78.80.v60.12-1vmw.600.0.0.2494585, VMware_bootbank_net-cnic_1.78.76.v60.13-2vmw.600.0.0.2494585, VMware_bootbank_net-e1000_8.0.3.1-5vmw.600.0.0.2494585, VMware_bootbank_net-e1000e_3.2.2.1-1vmw.600.1.26.3380124, VMware_bootbank_net-enic_2.1.2.38-2vmw.600.0.0.2494585, VMware_bootbank_net-forcedeth_0.61-2vmw.600.0.0.2494585, VMware_bootbank_net-igb_5.0.5.1.1-5vmw.600.0.0.2494585, VMware_bootbank_net-ixgbe_3.7.13.7.14iov-20vmw.600.0.0.2494585, VMware_bootbank_net-mlx4-core_1.9.7.0-1vmw.600.0.0.2494585, VMware_bootbank_net-mlx4-en_1.9.7.0-1vmw.600.0.0.2494585, VMware_bootbank_net-nx-nic_5.0.621-5vmw.600.0.0.2494585, VMware_bootbank_net-tg3_3.131d.v60.4-2vmw.600.1.26.3380124, VMware_bootbank_net-vmxnet3_1.1.3.0-3vmw.600.2.34.3620759, VMware_bootbank_nmlx4-core_3.0.0.0-1vmw.600.0.0.2494585, VMware_bootbank_nmlx4-en_3.0.0.0-1vmw.600.0.0.2494585, VMware_bootbank_nmlx4-rdma_3.0.0.0-1vmw.600.0.0.2494585, VMware_bootbank_nvme_1.0e.0.35-1vmw.600.2.34.3620759, VMware_bootbank_ohci-usb-ohci_1.0-3vmw.600.0.0.2494585, VMware_bootbank_qlnativefc_2.0.12.0-5vmw.600.0.0.2494585, VMware_bootbank_rste_2.0.2.0088-4vmw.600.0.0.2494585, VMware_bootbank_sata-ahci_3.0-22vmw.600.2.34.3620759, VMware_bootbank_sata-ata-piix_2.12-10vmw.600.0.0.2494585, VMware_bootbank_sata-sata-nv_3.5-4vmw.600.0.0.2494585, VMware_bootbank_sata-sata-promise_2.12-3vmw.600.0.0.2494585, VMware_bootbank_sata-sata-sil24_1.1-1vmw.600.0.0.2494585, VMware_bootbank_sata-sata-sil_2.3-4vmw.600.0.0.2494585, VMware_bootbank_sata-sata-svw_2.3-3vmw.600.0.0.2494585, VMware_bootbank_scsi-aacraid_1.1.5.1-9vmw.600.0.0.2494585, VMware_bootbank_scsi-adp94xx_1.0.8.12-6vmw.600.0.0.2494585, VMware_bootbank_scsi-aic79xx_3.1-5vmw.600.0.0.2494585, VMware_bootbank_scsi-bnx2fc_1.78.78.v60.8-1vmw.600.0.0.2494585, VMware_bootbank_scsi-bnx2i_2.78.76.v60.8-1vmw.600.0.11.2809209, VMware_bootbank_scsi-fnic_1.5.0.45-3vmw.600.0.0.2494585, VMware_bootbank_scsi-hpsa_6.0.0.44-4vmw.600.0.0.2494585, VMware_bootbank_scsi-ips_7.12.05-4vmw.600.0.0.2494585, VMware_bootbank_scsi-megaraid-mbox_2.20.5.1-6vmw.600.0.0.2494585, VMware_bootbank_scsi-megaraid-sas_6.603.55.00-2vmw.600.0.0.2494585, VMware_bootbank_scsi-megaraid2_2.00.4-9vmw.600.0.0.2494585, VMware_bootbank_scsi-mpt2sas_19.00.00.00-1vmw.600.0.0.2494585, VMware_bootbank_scsi-mptsas_4.23.01.00-9vmw.600.0.0.2494585, VMware_bootbank_scsi-mptspi_4.23.01.00-9vmw.600.0.0.2494585, VMware_bootbank_scsi-qla4xxx_5.01.03.2-7vmw.600.0.0.2494585, VMware_bootbank_uhci-usb-uhci_1.0-3vmw.600.0.0.2494585, VMware_bootbank_xhci-xhci_1.0-3vmw.600.2.34.3620759, VMware_locker_tools-light_6.0.0-2.34.3620759

Install the same command again without --dry-run option:

~] esxcli software profile update -d /vmfs/volumes/562a8a24-652fe97c-cc67-0025b5a1a016/ESXi600-201605001.zip -p ESXi-6.0.0-2016050400
1-standard
Update Result
Message: The update completed successfully, but the system needs to be rebooted for the changes to be effective.
Reboot Required: true
VIBs Installed: VMware_bootbank_esx-base_6.0.0-2.37.3825889, VMware_bootbank_vsan_6.0.0-2.37.3825891, VMware_bootbank_vsanhealth_6.0.0-3000000.3.0.2.37.3825892
VIBs Removed: VMware_bootbank_esx-base_6.0.0-2.34.3620759, VMware_bootbank_vsan_6.0.0-2.34.3563498, VMware_bootbank_vsanhealth_6.0.0-3000000.3.0.2.34.3544323
VIBs Skipped: VMWARE_bootbank_mtip32xx-native_3.8.5-1vmw.600.0.0.2494585, VMware_bootbank_ata-pata-amd_0.3.10-3vmw.600.0.0.2494585, VMware_bootbank_ata-pata-atiixp_0.4.6-4vmw.600.0.0.2494585, VMware_bootbank_ata-pata-cmd64x_0.2.5-3vmw.600.0.0.2494585, VMware_bootbank_ata-pata-hpt3x2n_0.3.4-3vmw.600.0.0.2494585, VMware_bootbank_ata-pata-pdc2027x_1.0-3vmw.600.0.0.2494585, VMware_bootbank_ata-pata-serverworks_0.4.3-3vmw.600.0.0.2494585, VMware_bootbank_ata-pata-sil680_0.4.8-3vmw.600.0.0.2494585, VMware_bootbank_ata-pata-via_0.3.3-2vmw.600.0.0.2494585, VMware_bootbank_block-cciss_3.6.14-10vmw.600.0.0.2494585, VMware_bootbank_cpu-microcode_6.0.0-0.0.2494585, VMware_bootbank_ehci-ehci-hcd_1.0-3vmw.600.2.34.3620759, VMware_bootbank_elxnet_10.2.309.6v-1vmw.600.0.0.2494585, VMware_bootbank_emulex-esx-elxnetcli_10.2.309.6v-0.0.2494585, VMware_bootbank_esx-dvfilter-generic-fastpath_6.0.0-0.0.2494585, VMware_bootbank_esx-tboot_6.0.0-2.34.3620759, VMware_bootbank_esx-ui_1.0.0-3617585, VMware_bootbank_esx-xserver_6.0.0-0.0.2494585, VMware_bootbank_ima-qla4xxx_2.02.18-1vmw.600.0.0.2494585, VMware_bootbank_ipmi-ipmi-devintf_39.1-4vmw.600.0.0.2494585, VMware_bootbank_ipmi-ipmi-msghandler_39.1-4vmw.600.0.0.2494585, VMware_bootbank_ipmi-ipmi-si-drv_39.1-4vmw.600.0.0.2494585, VMware_bootbank_lpfc_10.2.309.8-2vmw.600.0.0.2494585, VMware_bootbank_lsi-mr3_6.605.08.00-7vmw.600.1.17.3029758, VMware_bootbank_lsi-msgpt3_06.255.12.00-8vmw.600.1.17.3029758, VMware_bootbank_lsu-hp-hpsa-plugin_1.0.0-1vmw.600.0.0.2494585, VMware_bootbank_lsu-lsi-lsi-mr3-plugin_1.0.0-2vmw.600.0.11.2809209, VMware_bootbank_lsu-lsi-lsi-msgpt3-plugin_1.0.0-1vmw.600.0.0.2494585, VMware_bootbank_lsu-lsi-megaraid-sas-plugin_1.0.0-2vmw.600.0.11.2809209, VMware_bootbank_lsu-lsi-mpt2sas-plugin_1.0.0-4vmw.600.1.17.3029758, VMware_bootbank_lsu-lsi-mptsas-plugin_1.0.0-1vmw.600.0.0.2494585, VMware_bootbank_misc-cnic-register_1.78.75.v60.7-1vmw.600.0.0.2494585, VMware_bootbank_misc-drivers_6.0.0-2.34.3620759, VMware_bootbank_net-bnx2_2.2.4f.v60.10-1vmw.600.0.0.2494585, VMware_bootbank_net-bnx2x_1.78.80.v60.12-1vmw.600.0.0.2494585, VMware_bootbank_net-cnic_1.78.76.v60.13-2vmw.600.0.0.2494585, VMware_bootbank_net-e1000_8.0.3.1-5vmw.600.0.0.2494585, VMware_bootbank_net-e1000e_3.2.2.1-1vmw.600.1.26.3380124, VMware_bootbank_net-enic_2.1.2.38-2vmw.600.0.0.2494585, VMware_bootbank_net-forcedeth_0.61-2vmw.600.0.0.2494585, VMware_bootbank_net-igb_5.0.5.1.1-5vmw.600.0.0.2494585, VMware_bootbank_net-ixgbe_3.7.13.7.14iov-20vmw.600.0.0.2494585, VMware_bootbank_net-mlx4-core_1.9.7.0-1vmw.600.0.0.2494585, VMware_bootbank_net-mlx4-en_1.9.7.0-1vmw.600.0.0.2494585, VMware_bootbank_net-nx-nic_5.0.621-5vmw.600.0.0.2494585, VMware_bootbank_net-tg3_3.131d.v60.4-2vmw.600.1.26.3380124, VMware_bootbank_net-vmxnet3_1.1.3.0-3vmw.600.2.34.3620759, VMware_bootbank_nmlx4-core_3.0.0.0-1vmw.600.0.0.2494585, VMware_bootbank_nmlx4-en_3.0.0.0-1vmw.600.0.0.2494585, VMware_bootbank_nmlx4-rdma_3.0.0.0-1vmw.600.0.0.2494585, VMware_bootbank_nvme_1.0e.0.35-1vmw.600.2.34.3620759, VMware_bootbank_ohci-usb-ohci_1.0-3vmw.600.0.0.2494585, VMware_bootbank_qlnativefc_2.0.12.0-5vmw.600.0.0.2494585, VMware_bootbank_rste_2.0.2.0088-4vmw.600.0.0.2494585, VMware_bootbank_sata-ahci_3.0-22vmw.600.2.34.3620759, VMware_bootbank_sata-ata-piix_2.12-10vmw.600.0.0.2494585, VMware_bootbank_sata-sata-nv_3.5-4vmw.600.0.0.2494585, VMware_bootbank_sata-sata-promise_2.12-3vmw.600.0.0.2494585, VMware_bootbank_sata-sata-sil24_1.1-1vmw.600.0.0.2494585, VMware_bootbank_sata-sata-sil_2.3-4vmw.600.0.0.2494585, VMware_bootbank_sata-sata-svw_2.3-3vmw.600.0.0.2494585, VMware_bootbank_scsi-aacraid_1.1.5.1-9vmw.600.0.0.2494585, VMware_bootbank_scsi-adp94xx_1.0.8.12-6vmw.600.0.0.2494585, VMware_bootbank_scsi-aic79xx_3.1-5vmw.600.0.0.2494585, VMware_bootbank_scsi-bnx2fc_1.78.78.v60.8-1vmw.600.0.0.2494585, VMware_bootbank_scsi-bnx2i_2.78.76.v60.8-1vmw.600.0.11.2809209, VMware_bootbank_scsi-fnic_1.5.0.45-3vmw.600.0.0.2494585, VMware_bootbank_scsi-hpsa_6.0.0.44-4vmw.600.0.0.2494585, VMware_bootbank_scsi-ips_7.12.05-4vmw.600.0.0.2494585, VMware_bootbank_scsi-megaraid-mbox_2.20.5.1-6vmw.600.0.0.2494585, VMware_bootbank_scsi-megaraid-sas_6.603.55.00-2vmw.600.0.0.2494585, VMware_bootbank_scsi-megaraid2_2.00.4-9vmw.600.0.0.2494585, VMware_bootbank_scsi-mpt2sas_19.00.00.00-1vmw.600.0.0.2494585, VMware_bootbank_scsi-mptsas_4.23.01.00-9vmw.600.0.0.2494585, VMware_bootbank_scsi-mptspi_4.23.01.00-9vmw.600.0.0.2494585, VMware_bootbank_scsi-qla4xxx_5.01.03.2-7vmw.600.0.0.2494585, VMware_bootbank_uhci-usb-uhci_1.0-3vmw.600.0.0.2494585, VMware_bootbank_xhci-xhci_1.0-3vmw.600.2.34.3620759, VMware_locker_tools-light_6.0.0-2.34.3620759
~] reboot
~] Connection to hostname closed by remote host.
Connection to hostname closed.

ESXi blade will reboot and will come back with new Patched version.