Don’t check the ‘download from vendor’. Then when the PRJ runs it will pull down only the required patches.
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You are not required to downlaod all patches at the time of Catalog Update run (aka: you do not need to check the option to "download patches from microsoft"). You can just create the catalog without downloading the patches, and the necessary patches will be automatically downloaded during Patch Remediation Job.
Patch Remediation Job
(downloads patches, created Deploy Jobs)
(installs the patches)
At any time, you can also right click on the patch in the Catalog and create Downoad Job (to download it)
second question. Need more inforamtion - start by review the appserver log for any issues, see if the catalog eventually completes, see if it's downloading some big patches at the time into your repository folder ... start by creating a catalog without downloading the patches (per answer to first question)
Thanks for all the reply , i will look over into this and come back in case of issue.