You and another poster said we could have called a timeout after the 1st down run to reinforce the point, and can't argue much with that, though I'm not sure it's worth burning a timeout in a close game when we might have then been forced to use our last right before a FG with time left for them afterwards. I don't think it's a clear call, but timeout might have been the right call.
The last point I won't have a popular opinion on since a lot have said similar in this thread, but if you expect pro athletes (not the sharpest dudes in the shed) to remember a drill run 5 months prior in training camp covering the situation, or something mentioned in a position meeting that week when they are zoned out checking their phone, then you have a lot more faith in their high pressure mental functioning than I do. I trust their muscle memory, not their mental awareness.
I'm in no way saying the end was managed well, I just think it was a strange series of events and doesn't condemn any particular party. We did win the game.