> it isn't blatantly obvious which 4 pins the 40-pin chip is missing

Because the 44 has extra Vdd and Vss and a couple of NC

> On my board, the Vss pin of the 887 will be hardwired to 5 V... 
> but will I need this to be a higher voltage for programming it?

Vss should be substantially lower than 5V. More like 0V in fact.
Vdd / Vcc is 5V

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