Do I have to change the cooking time when I cook homemade noodles?
Homemade noodles have a completely different texture from dried pasta.  The times I've made lasagne for friends with fresh spinach noodles, they were quite confused by the texture.  And even if there's lots of moisture and time for it to cook in the casserole, you need to boil them for 30 to 60 seconds or they'll disintegrate in the casserole.

Depending on the recipe, I might consider starting with everything already hot, the pasta boiled for a minute or so, assemble it, then put it under the broiler (grill, whatever you call 'top heat only' in your country) to get a bit of a crust on top, then let it sit for a few minutes to firm up some.