Sounds like pretty good planning out you got there, Chris. What with the success of your UnOfficial Director’s Cut of the film, you’ll now have more deleted footage to add into the film. And if I may leave a few suggestions:

For the 89-style opening sequence, have darkened clouds appear as a background over the “DIRECTED BY JOEL SCHUMACHER” credit, and have the credit fade out there.
Remember in September last year with your Two-Face introduction concept video, the one that had the exterior shot at the end of the video of Gotham City with the Batsignal lit up in the sky? Use that.
I think the idea to have city shots that look similar to Burton’s Gotham is a fantastic idea.
I hope you can innovate with the new colour grade for this version of your most popular edit. 😃
Hopefully your edit on the safe sequence will bring back memories of your old concept video on Vimeo.

Share your thoughts on my ideas for your edit and good luck! ^^