How do you handle large data transfers on very memory constrained, embedded systems?

I'd do something like a scatter gather on a PC. Create a linked list of a struct like this.

If so, when your receive buffer gets close to being full, have the ISR drop the CTS line - if the PC side is configured to respect hardware flow control it should stop sending when it sees this condition. Once you have drained (or nearly drained) the receive buffer, assert CTS again and the PC should start sending again.

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