1. The maid Louise has no CG scene yet. The scene wasn't skipped, there simply is no scene in that part of her events.
A scene for her is planned, and will be added at some point.
2. It's the first time I hear about a problem with Linda's scene. I'll take a look at it.
Or are you confusing Linda (blue hair) with Mary (white hair)? I know and fixed and issue with Mary for the next upload.
3. The headache from the event in Millwater? You can fix it by sleeping in your bed or at an inn.
4. I wouldn't call 1 CG in over 200 CG scenes getting stuck on the screen "many problems," nor does that effect anything else in the game.
Currently you can only flag characters as pregnant. The actual pregnancy and birth will happen during/after the time skip events of the main story, which aren't doen yet.