Why didn't the Wraith just clone humans to use as a food supply?
They drain "life force" rather than blood, so probably something about clones not having the same kind of life force as natural-born humans. Remember this is a universe in which people are confirmed to have spiritual essence that can traverse realms beyond the material.
Why didn't the Asgard show up to help that one ancient bint frozen in ice after she got free?
It all happened pretty quickly. The Asgard didn't know and I don't think humans had the means to contact the Asgard at that time.
or show any interest in her leftover genetic material to clone a superior body?
Ancient Asgards were similar to the Ancients, but not the same. Probably wouldn't be viable to transfer an Asgard consciousness into a cloned Ancient body, especially given the problems they already had doing that with Asgard clones.
In fact, why didn't the Nox help the Asgard? Weren't the allies?
You're assuming a possible solution even exists. Maybe they already tried and couldn't come up with anything, either.
Why did the Atlantis expedition not just wait for like a few more months for the Daedalus to be ready before they set off?
I feel like this was just for meta TV show reasons, having the Atlantis Expedition cut off from Earth is more dramatic and allows the spin-off show to stand on its own more.
Why wasn't the Atlantis expedition equipped with Zats, which had at that point become standard issue in the SGC?
Because the people in charge knew Zats would be OP and decided to take the high road and fight fair in the Pegasus Galaxy. In all seriousness, more meta TV show considerations: The writers clearly regretted how strong they made the Zats and wanted everyone to forget about them, plus it again helps the spin-off form its own identity by not relying on so many carry-overs.