YouTube has additional audio processing, they normalize all audio to -14 LUFs, which means that some compression, normalization, and dither is applied to any upload. It's further possible that in preparing the video, the author may have applied some minor sound editing/fx that technically wouldn't have "modified PTQ settings" while still changing the audio very slightly. That said, I strongly suspect any difference will be due to YouTube sound processing (and perhaps even the volume of the youtube video). Even the sample rate between PTQ, the VST host, and YouTube can vary which will color or change the sound.
I personally have a hard time with getting PTQ sound mastered for YouTube, as orchestral/symphonic pieces that have a lot of dynamic range get very little change from YouTube's normalization and sound processing, where -14 or -15 LUFs is easy to target and basically occurs "out of the box" while a piano solo (and even worse with a harpsichord solo) comes off as twice or thrice as loud as it should because YouTube's normalization/compression colors the audio too much. Typically, I've had the best success by adding a voice into or outro to my PTQ demos for YouTube, because that adds enough dynamic range to the mix that the normalization doesn't go as wild as it can with a simple, quiet piano piece. So, again, my guess is that YouTube is "interfering" with the demo, which prevents it from being exactly what PTQ rendered, and if you got a hold of the original source file for the video, they would likely sound identical.
Spotify:
https://open.spotify.com/artist/2xHiPcCsm29R12HX4eXd4JPianoteq Studio & Organteq
Casio GP300 & Custom organ console