This is probably a case of me expecting the software to read my mind, but here's what happened.
On a mixed plane layer, I created two separate plane areas AGND and DGND. Now, I want those two planes connected at ONE point and ONE point only. What I did was I used a 1206 component and connected one pin to AGND and one pin to DGND. When everything was completely routed, I went to ECO and added a connection between the two pins of that 1206-this combined the two nets. The problem is that when I run Plane Connect, I get a single plane rather than two separate planes. The bigger problem is that I rushed this board out, and didn't check the CAM output that carefully, and now my board is useless. I realize I probably could have accomplished what I want by creating a plane cutout, but that seems to be a bit more difficult,
I realize there are many lessons here, but my question is: Is there any way to preserve the two separate planes when I run Plane Connect, or it that "just the way it works"?