Updates, on what I've found faulty and fixes
1. navi works but no radio or CD
-> BM53 radio was soaked in water and partially rusted. Replaced it with newer radio from 06 4.8is and bluetooth module, antenna, mic. Price was too good to pass.

Working great now.
2. Side mirror folding not working. worn out gear I suspect
-> this can wait for now
3. PDC not working, couple blown sensor.
-> this can wait for now
4. cracked front windshield.
-> this can wait for now
5. front CV boot
-> this will be fixed with new engine going in
6. telescope steering wheel not moving, suspect driver power seat switch
-> bought driver power seat switch from ebay and replaced. Telescope steering is working now.
7. driver side lower door seal missing
-> found seal in trunk, but all clips were broken. bought clips and placed seal back on.
8. infamous cluster dead pixel
-> bought cable from ebay for $4 and my God, it looks 100x better with all pixels working
9. MK4 navi v32 update
-> done
10. 2015 HIGH navi map
-> got it as ISO file. couldn't get it to work on DVD-R. Tried on DVD+R DL and it worked.
11. missing/broken misc interior pieces
-> picked them up from donor 4.8is and fixed
12. burn out tail light contact
-> this is well known tail light problem with e53. fixed with some soldering. I personally cannot stand a car with burnt out bulbs.
13. door, footwell nights not working, suspect GM3
-> When door opens, door, mirror, dome and footwell lights suppose to turn on, but mine doesn't.
This took me some time to figure out and thanks God I have another 02 x5 with working GM3.
So I took working GM3 and replaced. As soon as I installed, I see the lights from door, but VERY faintly, and GM3 was heating up quickly. Removed GM3 and thought, there must be electrical short somewhere. ah.... somewhere..... no one likes electrical problem and I'm one of them. Anyhow, starting to remove all the light connected to interior lighting. About a hour later, found a positive wire that was pinched and peeled for driver side footwell light. Wrapped it with electrical tape, and VOILA, all interior lights are working now! Since it was pinched and peeled, it created short in electrical system and fried GM3. I'll still need to get GM3 replaced, but at least I know what caused it and it's fixed.
That's it for now, until new engine goes it.