Newer graphics cards from the Geforce 8 series on, runs the same amount of images at 2048x2048 with acceptable fps. Importing scenes in several steps (biggest objects first), by using the 3D Toolkit to merge your objects, can prevent heavy performance problems too. Additionally you can improve performance by lowering Values at importing in the "optimize" tab (Acrobat 9), or using the 3D toolkit (Acrobat 8). I personally prefer the 3D Toolkit method, because it gives you a high quality sample, which you can reduce to more compressed versions incrementally. To do so, right click inside Acrobat on your 3D scene (Annotation) and choose "edit in 3D toolkit". In 3D Toolkit change an unimportant value (like scene material specular highlight) and exit the toolkit by closing the window. Because of the change of a value, the 3D toolkit has a reason to ask you to save the changes on exit.

Update:
Acrobat users, using Deep Exploration to get their objects into pdf will have the same Export Dialog as in 3D Toolkit, and maybe some more possibilities for optimisations, but at this moment I can't go more deeply into that, because I don't have Deep Exploration yet to figure out.
Finally you can reduce the file size additionally by using the pdf optimizer for saving your pdf.

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