In addition to the variety of controls you can use to adjust each of your two layers separately, you also have many options when it's time to output your creation. Virtually any type of 3D output...anaglyph, side by side, over/under, interlaced, or checkerboard. The best part about it is that you only need to apply the filter once in order to output to any of the aforementioned formats. The adjustments that you make can be keyframed all along the timeline, in case settings need to change over time.
Like every effect in FXFactory, you can use Stereo 3D Toolbox with a multitude of programs. Final Cut Studio, Motion, After Effects, and even Final Cut Express. In After Effects, you can even use Stereo 3D Toolbox with animations.
From what I can see on the support and blog pages, the designers are working on every possible output and input source, and are hoping to create the most complete 3D software plugin available. You can bet that if you have a question that they can't answer, they are working on it. As an example, Dashwood Cinema Solutions has stayed up with the current updates from Youtube, and supports their output format for 3D videos.
I have to be honest, I didn't have a ton of 3D footage to use as an example, because I never believed I could afford to do it! But as soon as I saw the output that this plug in could accomplish, the gears started turning. Now I want to build some type of dual fluid head mount so I can shoot in 3D all the time!
I will say that it does take forever to render, and I have a system with 8 Gigs of RAM. However, I find that this is true with almost any effect or plug-in that's truly worth its salt. (As I learned through the course of this review, Stereo 3D Toolbox is optimized more efficiently for VRAM, as opposed to system RAM. As such, for faster rendering, a video card with more VRAM will improve its performance more than extra system RAM will.)
It's hard to tell without a professional 3D viewing environment, but I would say that the work I've seen and done with Stereo 3D Toolbox could easily hold up to the work of Hollywood pros. It takes one element of difficulty away and levels the playing field once again, leaving it up to you to focus on the most important element of filmmaking...a great story.