TL;DR
Add Like/Favorite button/property to the mods in mod portal/gameWhat ?
1. Mod portal.Should have like/favorite checkbox/button when you logged in so you can track what mods do you like. You can have your own collection of useful mods right in the portal for future use (like most download-recently updated-your favorites tab) and not stored in memory/notepad
2. Game mod install window
Should have new tab named Favorites. So whenever you start fresh you can immediately install favorite mods from one place and not search them through the mod portal/saved games/notepad or whatever places you store your mod information