Don't worry about the links, I plan to continue updating the two resources in tandem, so that people can find it on giantitp and then come here for detailed discussion. This subforum is awesome, since I can have a thread about each prestige class and stuff, where before I would add one and it would just kind of get lost in the noise.
Can't wait to see the ayuscientist, I'll have to brush up on incarnum rules before reading it. The chakra idea is clever, I could see an interesting correlation there, but I don't want to add a discipline for no real reason. Although I do admit that I've been thinking a lot about Reifficiency lately...
Epic principles are called theories, and tie together the fundamental ideas of multiple disciplines. For example, there will be a ARCD/ELDK theory which finally lets you tie the concepts of Push and transformers together in manipulating kinetic energy! Also planning a BIOY/HEUR that lets an EI build a body for a circuit, and a ARCD/YGGD theory that lets you set up a space with reverse entropy, gaining energy with every exchange instead of losing it. And also an YGGD/ELDK principle that lets you time travel. So, yeah. They'll be pretty cool.
First though, I really want to finish the Arcanitect, because then there'll be at least one PrC for every discipline. The Asternomist is a hybrid class that merges YGGD and ELDK together, the first of hopefully many. Also there'll be another geoccultism PrC that doesn't make people use weirdly specific homebrew material. Mea culpa!
Thanks for the table tip, I'm still getting the hang of them here!