It's still hard to tell what the requirements are for 3D, but there is the potential for all of the relatively new HDMI v1.3 receivers and processors to have a problem passing HD3D video signals. For some discussion of the current state of affairs regarding 3D standards (or the lack thereof), you might check out this article. It's an interesting read.

One likely solution (which is apparently going to be implemented on at least one upcoming Blu-ray 3D player, I think from Panasonic) is to have two HDMI outputs on the player. One would go directly to the HDMI v1.4 display and the other would go to an HDMI v1.3 receiver or processor. This avoids the problem.

I could interject another rant about HDMI here, but I will refrain...