I only use the Marks in the Eberon setting, and even then, I make them race specific (as noted in the Eberon material). If you don't, I guarantee, every leader at your table will always end up with Mark of Healing, and every player that targets primarily Will, will all have the Aberrant Mark of Madness.
I ban all the Expertise feats (due to the whole "feat tax," reasoning), but I let players stilll take the Essentials ones, if they want the other part of the benefit. Instead, I give everyone a +1 feat bonus at 5/15/25 to all attacks. I give Improved Defenses for free (due to the whole "feat tax" reasoning). For feats like Gnome Phantamist and Draconic Spellcasting, I simply give a +1 untyped bonus to hit with x with those (wihout going up +1 per tier), but I keep the damage bonus intact (I don't mind some extra benefits for specialty builds).
And I ban the Epic Defense feats.
In all, I think the entire feat situation in 4ed is a big mess; most feats are either, next to worthless, or "no brainers." Thus, you end up with a lot of players having almost the very same exact feats.
I'm thinking about banning the Avenger feat, Painful Oath, because one would have to be an "idiot" not to take it. Same goes for Superior Implement (accurate) for implement users. I've banned the latter.
Superior Will is starting to aggravate me, because even though I give Improved Defenses for free, I dont have one player who hasn't taken that feat for the side benefit (granted, they are all at epic).
I myself have a major problem with any "auto-take feats," (for non-specialty builds), including, class feats, like, Painful Oath for avengers, and there are like 5 "auto-take" feats like that for swordmages. And quite a bit of them for standard wizards.
In my opinion of design theory, all feats should be, mediocre.
Again, I find the feat situation in 4ed to be an utter catastrophe. And I'm far from alone in my assessment. I even read a blog by one of the deigners suggesting that ALL feats be banned. . . I've had a headache ever since.