Hi Ridgeway i can totally relate to your story.
Me and my partner were trying for almost 2 years, he has 6 kids to 2 previous relationships. When we decided to try I told him that I didn't think I could have children, so I went for bloods which showed same problems as you, low progesterone and no ovuating.
I went for a scan to check for polycystic ovaries but was all clear, and my partners sperm test showed he had a high count (not surprised after 6 kids lol)
I was told to loose a stone, which at first went the opposite way and I gained 6lb, but then something in my head just clicked and I lost over a stone and got my bmi down to the right level.
I was given Clomid and at first my hopes were really high because blood tests showed it had worked for the first 3 months (i too was only going for day 21 bloods), then the next 2months my levels were really low, only 1.8. In my last round I had started to loose hope, i had my mind on other things instead of just 'baby'. I went for reflexology, ate healthily and bloods on day 21 showed levels on 47, which meant for the first time while taking chlomid I had ovulated on day 14. So I was preparing myself for my period to come on day 28 and started to think about ivf, as that would be the next step..... But my period never came and I'm now 14weeks pregnant.
I too had serious mood swings and awful hot flushes, really not nice. I've heard that if you take the tablet just before you go to bed the side affects should not be as bad.
My doctor told me to have sex from the day my period ended every 2 days, which we did apart from the last month, where we did it every day acer my period til day 21.......if your partner has a high sperm count then go for it!
Did you get a menstrual calendar to mark down the days you start/end your period, and days 14&21? I found this helped massively so I could count days etc. I was a bit anal and highlighted certain days and colour co-ordinates them lol.
I know it's hard and to try and relax when you're going through such a shite time is almost impossible, but it's the best advice I can give.
Goodluck xxx