There were major differences between regions, with no trust in the South East offering three cycles, while the majority in the East region did so.
Within regions, there were also discrepancies: a third of London trusts, for instance, offered just one cycle, just over a quarter two and about the same proportion three.
Some 80% of the PCTs contacted responded to Mr Shapps's survey.
Too young, too old
Mr Shapps also described "a confusing hotchpotch" of eligibility criteria which trusts are free to impose - ranging from how much the mother weighs to how long a couple have been together.
Couples in Gloucesteshire must have been in a stable relationship for more than three years, those in Kensington and Chelsea just 12 months.
ELIGIBILITY CRITERIA MAY INCLUDE
Body Mass Index
Length of relationship
Previous private treatment
The survey found that the majority of PCTs now offer IVF to couples in which the woman is aged between 23 and 39, as recommended by NICE, but more than one in eight impose other age restrictions.
In North Lincolnshire she would have to be at least 37 before she would be considered. In Hampshire and the Isle of Wight she would have to be at least 36.
Average success rates of 25% per cycle are believed to fall sharply after the age of 35.
More than half of trusts impose criteria which exclude couples in which one of the partners has a child from a previous relationship.
And a further one in six trusts would not consider fertility treatment for a couple who had previously paid for it. The Human Fertilisation and Embryology Authority, which regulates IVF clinics, estimates that around 80% of couples seek IVF privately.
Mr Shapps said he was aware that "spending on the NHS is finite and funding is precious.
"This report acknowledges that priorities must be made but that those prioritisations must be made equitably and that unfounded pronouncements should not be made by politicians or others if the effect is to increase the hopes of emotional couples beyond what they can reasonably expect."
Clare Lewis-Jones, head of the Infertility Network UK, said there had been improvements in the provision of treatment.
But, she added, there still remained totally unjustifiable and unfair variation in the criteria used to determine whether or not couples could access treatment.
"This is yet another survey which proves that, five years on from the issue of the NICE guideline, patients are still facing a postcode lottery when it comes to accessing NHS fertility treatment.
A Department of Health spokesperson said: "Our survey of every PCT in England shows the NHS is making good progress in implementing NICE guidelines and in providing fair and consistent access to IVF.
"Our figures show that 30% of PCTs are providing three cycles of IVF, 23% two cycles and 47% one cycle. This shows significant improvements, with only two trusts not routinely providing infertility treatment in England.
"The option to become a parent is something most of us expect to have. People who cannot conceive naturally should have access to NHS treatment, just as they would for any other clinical need."
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