I have done a kitchen extension, and you have to remember if you compromise on something now you may regret it later and it may take the shine off how you feel about the extension.
So, if you want to keep the roof lantern then keep it. Is the alternative velux? How much would that realistically save you?
Bi-fold doors, buy ready made rather than bespoke, just get the builder to make the aperture the size of the doors.
I have a bay window with French doors in my lounge which overlooks the back garden. The french doors have a stay open device to keep them somewhat locked in place, but they do not intrude on the patio area. If you were looking at bi-folds surely they stack back to one side, French doors may impose on your outdoor space.
The main thing I did for cost cutting was on things like lighting, sink, tap, dishwasher, fridge freezer etc so I found ones I liked then searched to find the best deal on it. All online although I did visit Currys to feel the quality of the brands of dishwasher and fridge freezer.
Your builder should be full of knowledge of where to buy stuff. My builder had been in the trade for 20 years and had a wealth of supplier information etc.
If you need to cut costs then maybe get the structural things in place but wait for things like flooring, new furniture etc. Like I said, you may kick yourself. I refused to compromise on my £850 induction hob. It is a joy to use it almost daily. The compromise was the Beko dishwasher instead of a Miele one but the dishes are still clean 