Well, I really, really can't judge the monsters; I really know nothing about monster balance or how CR works, etc. Sorry.
As for the mysteries, though:
I think it looks better if if the level and school (as in, "1st/Abjuration [Good]") weren't bolded. That's how they format it in Tome of Magic, too.
Anyway, you shouldn't call it Protection from Evil because Protection from Evil is a spell, not a mystery, and more importantly this isn't the same as Protection from Evil. "Hidden from Evil", perhaps? Otherwise, looks fine.
Possible abuse from gaining immunity to nonlethal damage, but otherwise this looks quite reasonable.
Also, again, you should bold each of the sections but not their values (e.g. "Range: Close", "Target: 1 living creature", etc), it makes things clearer.
"Dark Prophecy" is an odd name for a Good mystery, methinks. Anyway, the mechanics... well, all but the last sentence are totally fine; the last sentence is a little strange, as it references a specific class feature of another class, and moreover I'm not aware of any "Good-aligned Bardic Musics" - you should probably use something like "supernatural abilities to aid allies (such as Bardic Music or a Marshal's Aura) used by Good creatures", IMO. Along with the spells thing. I'm not sure why you're requiring that they have Verbal components...
Sounds fine other than the use of Protection from Evil, as above.
I like this one; a series of nice defensive enhancements.
Leaving a blank space between paragraphs is a good idea, formatting-wise, as it makes it much easier to see the separation. We can't really indent here, so skipping a line is the next best thing.
Glamer, Figment, and Shadow are not descriptors, they are subschools. The last line should read "spells of a lower level with the Darkness descriptor, or from the Illusion (Glamer), Illusion (Figment), or Illusion (Shadow) subschools." Descriptors use square brackets (e.g. "[Good]"), while subschools use parentheses (e.g. "Conjuration (Creation)").
Otherwise, looks good. You're lacking some formatting, though.
Typo; you have "as thought" instead of "as though". Otherwise, I rather like this one.
You should say "melee attacks made with natural weapons or manufactured weapons without reach", I think. You should also specify whether or not the damage happens before or after their attack - after all, the damage might kill them. Or their attack might kill you. If both parties always take damage, you should spell that out, otherwise, state which damage applies first.
As for the effect, I think it's fine. My only concern is that the duration of the Slow is rather long for a reactionary effect. It's also two levels higher than Slow, though, and Slow effects many targets at once, so it's probably fine.
Looks fine to me.
The... what?
OK, the Return key needs to get to know this mystery. I think they could be good friends.
Anyway... This seems very strong. I'm not sure it's too strong, but it seems very strong. There aren't any effects out there to my knowledge that are like either of these, though, so it's hard to judge.
I like the "not kill" thing, but you should probably not specify -9 damage - there are effects that can change the HP point at which you die. Just say "the minimum number of hit points to avoid death (usually -9)", IMO. Anyway, I like the effect and the ignoring of defenses is a nice boost to what would be an otherwise somewhat boring blasty spell.
I feel like you should say "reducing your Constitution penalty to less than that caused by this mystery immediately undoes it. When the Eternal Mystery ends, you undo its Constitution penalty, returning it to whatever value you would have if you had never used Eternal Mystery, including if it was ended by reducing the penalty."
Anyway, this is somewhat dangerous but I don't think Shadowcasters really have anything they can abuse it with.
I like it, this is cool.
I would say "This may be used as the Shadow Conjuration or Shadow Evocation spells, but it may create shadow versions of applicable spells up to 8th level, and the shadow spells are 80% real." This references back to the original spells (otherwise you have "this is as Shades, which is as Shadow Conjuration"), and the 80% real rule applies itself to everything applicable.
Afraid I'm not overly familiar with RoC's Shadow project, though I am impressed with its scope. At any rate, I can't really judge these feats.
Is the immediate action at-will? Considering that this costs a feat and an action, I don't think you should have to sacrifice a 6th level Mystery for it. If you stick with that, you need to clarify if it's a single use of a Mystery, or all uses.
Also, "Vore"? Informally, that can refer to eating, but... not really. Usually it refers to... an extremely squicky fetish. I think you might come up with a better name, here, because honestly "Evil Vore" sounds like something far more vile than anything in the BoVD...