I’m personally in favor of including everything that’s non-redundant and has finished FX. If the duplicate lines can be edited out, I’d like the Mace Windu one for showing off a more optimistic side of him in regards to Anakin to counterbalance he how treats him in ROTS. I also like the Padme bedroom scene as a hint of looming darkness.
I also like the Dooku statue scene but I’m a little iffy on the unfinished FX and the low-res statue close-up. Best version I’ve seen is by Mecha Salesman.
https://youtu.be/5vPvyV7xznc?si=1_d9PkFg3Je43kQw&t=218
I think it’d be very weird to have scenes from a cartoon in a live action movie.
So far, I think the best possible version would be something similar to a video with flashbacks of Qui-Gon that was mentioned in the OP.