Whilst I haven't checked your bwa files, I doubt that you're doing anything wrong nor is there anything new or abnormal with your results.
From the guide you used-
"Myth: If you made a perfect bwa file, your copy will both install and run on any system and from any drive.
Fact: Even blackcheck will tell you that twinpeak copies will not run on all drives, let alone install. Of course, the better the bwa file, the better your chances but, no matter how good the bwa file, the copy may still fail from one or more of your drives. However, this hardly matters so long as it works from one of them.
Fact: No matter how good the twinpeak copy, it won't be able to be used to install the game from some drives even though it can be used to play. Again, the better the bwa file, the better your chances but even a perfect bwa file doesn't guarantee success. A twinpeak copy is not a standard cd and many readers will "choke" on the twin sectors when trying to install. As a general rule, the more accurate the reader, the more likely it is to "choke" when reading during the installation process. You will probably have difficulties with installation from the twinpeak copy if you use either a Toshiba or Plextor drive as the reader. On the other hand, Lite-on drives are somewhat more tolerant of twin sectors and you shouldn't have much difficulty with installation from a Lite-on drive so long as your bwa file didn't have too many spikes.
Q. What should I do if I can run the game from my copy but can't install it from the copy from any of my drives?
A. There are two straight-forward solutions:
a) Install the game from the original cd on the (rare) occasion that you may need to install (you do own the original don't you?).
b) Make a further copy of the play cd using any general burning software (e.g. nero) without any special settings and use that copy for installation purposes."