I've sent a panel photo and order number, but not the manual revision; the file came with the seller's setup message and I assumed they knew which one they'd attached.

Include the file's revision anyway. Forwarded tickets lose their original attachments remarkably easily.

The cover has a revision, so I've added that and marked the connection names which disagree with the delivered panel (all external photographs).

Does their reply identify which document applies to that controller revision, or merely say the robot model is correct?

Only that the model is correct, which I haven't disputed; I've asked them to identify the controller-specific guide and kept the installation hold in the same message.

Model confirmation doesn't reconcile those connections. Leave the mismatch open; no pinout guessing from resemblance.