Inquisitors - strange individuals with heads full of forbidden knowledge, leading around packs of strange companions and calling upon support from various forces.
Sounds like an old British sci-fi series...Doctor Who!
The Doctor / Time Lord (Inquisitor Lord)
- With some high-tech gear and a bevvy of strange companions (henchmen).
Gallifreyan Shock Troops (Sisters of Battle)
- Good armor and guns, funky time-lord tech abilities to change time represented by faith points.
UNIT allies (Inducted Guardsmen)
- Led by the stalwart Brigadier.
Throw them up against some Cybermen Necrons and you're good to go!
Would also work well as mainly an IG "UNIT" army with an allied Time Lord.
OK, that's it for the series for now. Passed over a few due to unfamiliarity, and I'll let the readers (both of you) be the judge on how well the various ideas work. Even if you don't use any of these specific counts-as ideas, I hope it helps to get the wheels turning in your own head for some fun and unusual armies!