My roof was replaced a year ago and we discovered two significant leaks
after a recent rain. I should explain that we've been in a drought since the
roof was replaced and this was the first significant rain since then.

The leaks were under two windows in our upstairs bedrooms that mount on the
wall over our garage. I had told the roofing company to replace the flashing
over the garage when they first replaced the roof. Unfortunately, they
didn't do that at the time and I suspect the leak was due to that error.
They came out and decided they would replace the flashing but do so by
nailing the flashing over the stucco and then under the asphalt roofing
shingles. They said it could be done two ways and that this would be the
less destructive way and it wouldn't involve us calling out a stucco man to
replace the stucco they would otherwise have to remove. More rain was due so
we agreed to nailing the flashing over the stucco as long as it was a valid
fix.

That was two weeks ago and now I've got some concerns. How will the flashing
stop the rain that goes into the stucco from draining down behind the
flashing and into our house? That seems like an obvious problem but now that
its done should I paint and seal the stucco above the garage and windows to
prevent this from happening?

Thanks for any help.