Flatpack apps performance on Linux Mint

I did notice that sometimes the flatpack version of a program didn't seem to always recognise my graphic card. I've seen this first with Handbrake, but also with other apps seems to get better performance with the mint package or the official ppa. Did anyone notice anything similar?

I'm using Mint on an old HP laptop with a nvidia card so if anything I'm glad that everything is recognised properly (safeboot disabled).