I have been following the 2.7T Stg1 Tuning thread but I have applied all the changes to a 4Z7907551K Bin running on a 01 A6 2.7T TIP.  I know this is based on the M file and I have completed all the changes converting over memory locations to the K box (needed the IMMO working, car stolen, long story ) 
The bin is loaded into my Q box and my L box (thought it might have been an ECU so tried both with same results).   Car runs awesome, throttle seems a little touchy but acceleration is great for a while BUT after a bit I notice the car looses it's preppiness  and the car has a hard time accelerating, even at WOT.  Noticed when its cooler it runs better and it seems like I almost need to fully let go of the accelerator to get the prepiness back which lasts only about 25% of the throttle.  Would this have anything to do with the car being a TIP? (Logging not setup yet and no codes thrown).  Edited out the EGT and rear O2 sensors.  Followed the Tuning thread down to a T several times but hitting this brick wall.  Anyone have any thoughts??

Hopefully after this weekend I will come back with some logs (wanted to swap out my ignition coils as well this weekend and check my spark gap just to make sure all maintenance items are up to par) I apologize for not having my ducks in a row just yet. On another note I put a stock K bin on with edited out EGT and rear O2, the car runs really nice. :S  I will do my homework before coming back for help.

Sounds like you need to tune back MLHFM. Your getting Deviation Limp. Also you may want to try and bump up KFMLDMX. The Ram Air box will suck in more air at high speeds so you need to calibrate for this. everyone who follows the stage 1 build at this time will also have to play with these calculations.

I ended up following FlyBoy's changes as I am learning and wanted to keep everything consistent as I figure out how everything links together.  Get the basics but I learn by doing so this seemed like a good base start.  Got my car tuned up now, found my gap a little large (0.032 inch) and one plug loose...  So will run the modified ECU once I replace my cracked expansion tank. 
I just thought maybe the TIP car has another set of variables I need to alter as well (Read couple things about Torque converter protection and such..).

Manually went through HEX editor with a Mbox comparing addresses to my new K box and had TunerPro Display the exact same scalars as FlyBoy's original  images before his changes. I will include my files below just in case I missed something obvious.. :S Forgot to mention that anything in the DEF file that has a (K) next to it, those values have been converted over.

Generally we always assume ESP is off when tuning. The ABS module determines torque intervention and sends it to the ECU to execute. We have limited control in the ECU over that intervention, although it can be set to be ignored. It is a complex topic, since there are many components to ESP: ASR, ESC, EDL, etc. all of which are tuned from the factory with the assumption they are working together as designed.

Longer discussion here

http://nefariousmotorsports.com/forum/index.php?topic=7487.0

See the thread that Nyet linked to, if you code out esp in the ecu, you also disable ABS and thus remove your brake biasing.

Hit the button before doing any pulls.