ah. i overlooked the topic sorry.
you wrote that you have read the flash to a file. was that before or after the (first) write attempt? if it was before i.e. you have made a backup and it still verifies, then you should be good. flashrom (even 0.9.3 iirc which was succeeded lately) should have told you then that nothing has changed when failing to write.
the output of the failed write would also be very interesting (even more in verbose mode).