I would probably not change anything about the tracklist for the PG era albums. Other ones like ATOTT and Wind & Wuthering I'd feel like I'm changing just for the sake of it, but may not be necessary. The three I'd say could benefit from a reorder would be Abacab, Genesis, and WCD.
In this, I also took the liberty of inserting some B-sides that were left out but would've created better pacing for the album, in favor of IMO weaker songs.
Abacab:
1. Abacab
2. No Reply at All
3. Keep it Dark
4. Dodo/Lurker
5. Paperlate
6. Me and Sarah Jane
7. Man on the Corner
8. You Might Recall
9. Like it Or Not
I feel this tracklist creates a little better balance across the album, based on the style of the songs. If there were space, I'd add Naminanu, 1. cos I love it, and 2. cos it would be nice to have an instrumental on there.
Genesis:
1. Mama
2. Illegal Alien
3. Taking it all Too Hard
4. Silver Rainbow
5. Just a Job to Do
6. That's All
7. Home by the Sea
8. 2nd Home by the Sea
9. It's Gonna Get Better (full version)
IMO this tracklist spreads out the 'good ones' a little wider across the album, instead of having them all at the beginning, causing side 2 to be otherwise forgotten.
We Can't Dance:
1. On the Shoreline
2. Jesus He Knows Me
3. Dreaming While you Sleep
4. I Can't Dance
5. Way of the World
6. Living Forever
7. No Son of Mine
8. Never a Time
9. Driving the Last Spike
10. Hold On My Heart
11. Tell Me Why
12. Fading Lights
This one was a bit tougher, but with this tracklist IMO it solves the same issue the Genesis album had; all the popular songs on the first half, leaving the second half unnoticed. This tracklist spreads out the "favorites" more across the album, with each side starting strong. I also replaced Since I Lost You with On the Shoreline, which IMO serves as a great album opener-maybe not as iconic an opening as No Son of Mine, but I like it better personally.
Calling All Stations:
1. Calling All Stations
2. Anything Now
3. Small Talk
4. Congo
5. There Must Be Some Other Way
6. The Dividing Line
7. Not About Us
8. Uncertain Weather
9. Alien Afternoon
10. Shipwrecked
11. Sign Your Life Away
12. One Man's Fool
Again, this one wasn't easy but it again was all about spreading out the good ones...with a couple preferred B-sides added in.