While snooping around forums and wikis I herd that the thalmor knew how to make secunda and masser reappear, because they caused it to disappear in the first place. Using ancient aldmer magic they made the moons vanish, curious to see if the khajiit would revert back to their "original form", all it did was sterilise them. And apparently they had to assassinate the mane for the plan to work, because the manes soul is linked to the moons (maybe he's soul trapped). The aldmer/altmer already performed eugenics to make the Breton and become better mages, so it doesn't surprise me.
Anyway, did the thalmor cause the moons to disappear? Are they going to use it again as a WMD if ever the khajiit betray them? TESVI save khajiit from the moon thief's? LOL
Any evidence to support this stuff? Reasonable speculation is welcome.