Recommendable production codecs for Adobe video products I'm currently searching for new codecs that are better suited for production than the ones we are currently using. So far we used QuickTime Animation and PhotoJPEG. The latter always proved as something "rocksolid" and never made any problems. Though its lossy and has no alpha, thats when we used Animation but that codec is a dinosaur when it comes to compression and bit-depth.
I generally dislike all the built-in QuickTime codecs as they either dont deliver all the formats options or are just not pracitcal in a multi OS workflow. The whole Pro-Res family is a no go as it can only be encoded on a mac (except for the beta version of the ffdshow ProRes encoder).

So far I'm very happy with JPEG2000 using the j2k plugin from fnordware, the format has all the good things from legacy JPEG and Animation and has even more features but the downside is the fact that its an image sequence which is not so nice to handle as a single container file. The crippled JPEG2000 codec in QuickTime is no option.

So what I'm searching is a codec that can be used with container formats like .avi or .mov (or any other container, it really doesn't matter), with a good compressability in the range of lossless JPEG2000, atleast 16bit per channel and support for an alpha channel. E: And of course lossless if that wasn't clear so far. Otional lossy compression like JPEG2000 has, would be great but not necessary.

I hope someone can suggest me something, its no problem if the format needs a plugin for After Effects, Premiere etc. it just needs to be compatible with CS6 and not be restricted to Windows or Mac.
Ut Video is an editor friendly lossless video codec and is a good choice for in house production as an intermediary. It is fast, open source, actively developed, supports RGB(A)/ULRA (for your alpha channel requirement) and YUV colorspaces, and is available for Windows, OS X, and Linux. You can install it on Windows and it will show up in Adobe Media Encoder, After Effects, etc. I don't know if it will fit all of your needs, but it is worth a try.