Dear Maria,
Infertility can be very frustrating because it is a symptom of underlying disorders. Sometimes it is just one or the other spouse but often times both spouses can have disorders which contribute. So I am going to assume that your husband has been given a good bill of health.
I am not sure what your physician means by seeing only 3-4 follicles. I would wonder at what time of the cycle the ultrasound or laparoscopy was performed to make this assessment. Also,I would wonder what the sizes of the follicles were. Each month generally one follicle will develop and enlarge to the appropriate size and then rupture signaling ovulation. Ovulation is triggered by lutenizing hormome from the brain. The remaining follicle then starts to produce progesterone which makes the endometrium (lining of the uterus) nutrient rich with small blood vessels for the child to implant. If the follicle is of a small size or poor function, the amount of progesterone will be too low to stabilize the lining of the uterus. Women may get “ovulation bleeding”. The estrogen level has been sufficient in the first half of the cycle to build up the lining but the progesterone does not pick up quickly enough or at sufficient levels to sustain the endometrium. The amount and the timing of the progesterone is vital to sustain a pregnancy. Fatigue and breast tenderness occur earliest in pregnancy, with fatigue at 10-12 days post-conception and breast tenderness 3-5 days after conception.
Perhaps your progesterone is not rising quickly enough then you experience the brownish bleeding although I would expect more bright red bleeding. Based on what you say, your post ovulation phase is 13 days which is average although your BBT is dropping almost immediately. Your actual menses is a little on the short side and would wonder how much flow and what the pattern of the flow is. It would also be important to know about how much peak type (estrogen type) mucus you are producing. This also can give insight to how the follicle is functioning.
Clomid does stimulate ovulation and can be used well providing all other parameters are in place. You are right to be concerned about why you are having the mid-cycle bleeding because you would want to know that enough progesterone would be in place for a pregnancy. Generally, I would advise lower doses of Clomid than what is commonly used by most physicians as higher doses usually are associated with more ovulation.
So yes it is possible to be conceiving but no implantation.
It is possible with the help of CANFP to locate a certified NFP teacher who may be able to help you fine tune your charting. Then this teacher can help you locate a physician for a second opinion especially someone who is trained to interpret charts.
I hope that this is helpful!
Dr. Gretchen Marsh