Krissy72778 From what you've said I'm not sure who's romantic options have disappeared as I don't see the connection between the cloning machine and the mother/daughter. Who lost their romantic options? Was it the mother, daughter, both, or other sims? Normally, there are no romantic options between family members so there should be no romance options between the mother, daughter and daughter's clone. The clone should show as a 2nd daughter to the mother and a sister to the daughter with no romantic options between any of them. In addition, since Lovestruck, there are no romantic options between sims who have known opposite gender and romance attractions. The clone should also have the same gender/romance preferences as the daughter.
On the cloning pad, the only things that ever get changed when you use one, is that if the cloning fails, you get an evil twin with negative traits. Nothing else about the sim is changed that I have ever noticed. So, the cloning machine should not affect the romance menus.
If the issue is that the mother, daughter or clone have no romantic options towards other non-related sims, in addition to checking their relationship to each other, you might want to check their gender and romance preferences to see if something got changed there. I have noticed that how you play will cause the romance gender preference to change but the woohoo gender preference doesn't seem to. i.e. if you have both male and female checked, then later on, the game will uncheck the gender you've used the least.
Hope this helps.