VSTs Not Showing Up in New Projects

Not sure but in this situation I would try to delete the plugin xmls from the preferences (AppData) folder and let Cubase rescan.

Vst2PlugIns Cubase.xml
Vst2xBlacklist Cubase.xml

Also give some more info on your system…which o/s which Cubase? 64bit Cubase, All 64 bit plugs?