There may still be a very small chance in the Morroblivion Unofficial Patch that the kwama workers may attack and kill the egg poachers, but this chance is greatly reduced from the unpatched behavior. What mods are you using? The Unofficial Patch? Morroblivion-Fixes? Please let me know as this will help me fix it for the future.
You can try these consolecommands to resurrect the two poachers:
Do this from inside the Queen's Lair. This should hopefully respawn the two actor references.