Congratulations!
It's a natural phenomenon that some lilies will just be more prone to producing good seed, while with others it may be difficult to get any seed from them at all. Some lilies will be more vigorous, some less. Some tall, some short. Etc. Etc. This, of course, is natural variance within the species, and it's no different for seeds.
So, that you have variation in your seeding now is to be expected. I don't think the "red ones" are particularly less vigorous or more stubborn because they are red; more likely it just happened to be that that batch of stubborn seed just happened to be red, and the flower color has no bearing.
Other variations can occur from the quality of the pollination, or compatibility of egg and pollen. Lots of things can affect the quality of the seed, including post harvest storage.
Personally, I keep ungerminated seeds in the baggy for as long as they look good and are not rotted. It might take a martagon seed three seasonal cycles to get started, but I'd venture 99% will have germinated by the second cycle.
You'll need some good luck with the seedlings that have already produced leaves. It's really difficult to successfully transplant such delicate plants and keep the leaves intact. But, the bulbs will still be good.
