How bout xxxholic? And SID? I know I've read some others but I can't really remember...

Bake Kano

Tasogare Otome x Amnesia
GS Mikami Gokuraku Daisakusen!!
Baka to Boing

Pinocchio
One Winter

[img]http://vdexproject.net/p/46696/partymini.png[/img]

Totsugami - He can see ghosts and other supernatural things.
Sougiya Riddle - The guy can see ghosts, but wants to get rid of the ability.
Genjuu no Seiza - The guy can see his guardians and other supernatural things. Eventually, he's not the only "special" one.
Edit: Forgot one more, Natsume Yuujinchou. It involves both ghosts and spirits.

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ga-rei
defence devil
pajama na kanojo

I like turtles

Here's another one.
Ushiro no Shindere-san

Ghost Only

Bleach

Banana Gecko!!
[img]http://www.nodiatis.com/pub/19.jpg[/img]
[img]http://www.wizards.com/magic/images/whatcolor_isblack.jpg[/img][B]

Try this;
Harizuki Kagerou Enshimonogatari
Vampir
Yuurei Apato Kanrinin

there's Shinrei Tantei Yakumo

Renai Kaidan Sayoko-san

Heaven!!

Kamichu! (about a high school girl who sees all kinds of traditional Japanese spirits and such)
Majo (collection of short stories about certain persons in different times/cultures who are somehow connected to spirits/ghosts/gods, not probably what you're looking for but definitely worth reading)

Far-off places with sweet sounding names.