Truth be told, I don't get much use out of Complete Arcane, since my Homebrew uses Arcana Evolved's magic system, and the Variant Bard out of The Complete Book of Eldritch Might. However, there are a few Prestige Classes that seemed to fit my campaign's flavor.
Blood Magus- I've always liked "innate magic" and you don't get much more innate than making your blood magical.
Enlightened Fist- I'm a sucker for magic martial arts.
Seeker of the Song- My cosmology is based on the discarded/innacurate designs of Kepler, when he was still holding onto romantic ideas like Perfect Solids and The Music of the Spheres, and thus, the Primal Music seemed a good fit (though mechanically, it took some work).
Wayfairer Guide- If I could have taken this with my Shackled City character, that campaign would have been so much easier. AE's teleport is slightly less reliable than D&D, and so, we got telefragged or had to leave people behind too often. Worth the effort of converting it just to have the satisfaction of knowing it's there.
Thusfar, I've had one Enlightened Fist NPC, and one of the PCs in my next campaign is going to be an Aasimar Bard/Seeker of the Song.
Robert "Pick and Choose" Ranting