Will try to follow all topic's title, topic's actual mood and Extreme's comment above.
Listing most... "prominent" anime/manga I've stumbled with, and marking with '*' those I'd say "liked the most".
Anime:
Fullmetal Alchemist Brotherhood*
Ergo Proxy*
Serial Experiments Lain*
Tsukihime
Kara no Kyoukai
Fate/ sagas in general
Monster* (interesting indeed, but *extremly* slow)
Mushishi*
The Twelve Kingdoms
Perfect Blue
Tasogare Otome x Amnesia* (manga as well)
Another*
Tokyo Godfathers
Sci Fi Harry*
Mirai Nikki*
Jormungand*
Paprika*
Paranoia Agent*
Summer Wars*
Toki o Kakeru Shoujo
Wolf Children
Night at the Galactic Railroad* (what a great bittersweet piece)
Brave Story*
Mononoke Princess
Howl's Moving Castle
Spirited Away -Sen to Chihiro no Kamikakushi-*
Kiki's Delivery Service*
Death Note
Accel World* (+note at bottom)
Sword Art Online
Akira*
Cowboy Bebop
+Too bad it got a shameful OVA instead of a due next season; worse, OVA took *right were LNs are* and author is seemingly no longer taking his works that seriously... correct me if wrong please.
Manga:
Narutaru
Bokurano*
Deadman Wonderland
Oyasumi Punpun* (perhaps the best I've ever liked until now)
Uzumaki
20th Century Boys* (same author as Monster)
Ane Freaks*
Aku no Hana
Rozen Maiden (anime part as well; disappointing indeed...)
I omitted some others due to believeng they're already of strong public domain.
Listing most... "prominent" anime/manga I've stumbled with, and marking with '*' those I'd say "liked the most".
Anime:
Fullmetal Alchemist Brotherhood*
Ergo Proxy*
Serial Experiments Lain*
Tsukihime
Kara no Kyoukai
Fate/ sagas in general
Monster* (interesting indeed, but *extremly* slow)
Mushishi*
The Twelve Kingdoms
Perfect Blue
Tasogare Otome x Amnesia* (manga as well)
Another*
Tokyo Godfathers
Sci Fi Harry*
Mirai Nikki*
Jormungand*
Paprika*
Paranoia Agent*
Summer Wars*
Toki o Kakeru Shoujo
Wolf Children
Night at the Galactic Railroad* (what a great bittersweet piece)
Brave Story*
Mononoke Princess
Howl's Moving Castle
Spirited Away -Sen to Chihiro no Kamikakushi-*
Kiki's Delivery Service*
Death Note
Accel World* (+note at bottom)
Sword Art Online
Akira*
Cowboy Bebop
+Too bad it got a shameful OVA instead of a due next season; worse, OVA took *right were LNs are* and author is seemingly no longer taking his works that seriously... correct me if wrong please.
Manga:
Narutaru
Bokurano*
Deadman Wonderland
Oyasumi Punpun* (perhaps the best I've ever liked until now)
Uzumaki
20th Century Boys* (same author as Monster)
Ane Freaks*
Aku no Hana
Rozen Maiden (anime part as well; disappointing indeed...)
I omitted some others due to believeng they're already of strong public domain.