Natural England is duty-bound to defend rare species and protected areas including national parks and England’s 4,000 sites of special scientific interest from potentially environmentally damaging developments.

But the regulator faces a budget cut of 27% and a reduction in headcount of 20% by 2020 due to cuts to the Department for Environment, Food and Rural Affairs (Defra). This means it will have a “significantly reduced national capacity”, it admits,.

A internal document from June, seen by Greenpeace and shared with the Guardian, says the agency will “make more proportionate use of our regulatory powers” and “retain our regulatory powers but will use them more proportionately and more efficiently, while increasingly operating through advice and partnership.”

Internal sources say this amounts to using its powers less and to agreements that “compromise wildlife”. …

… Stephen Trotter, the director of the Wildlife Trusts, a network of 47 local groups, said: “We have for some time seen evidence across the trusts of less engagement with planning issues by Natural England than would have been the case previously. We find that particularly around non-designated but local wildlife sites, it has a reluctance to get involved in defending those sites.”

Other changes to the way the agency operates include providing “advice to government that is politically aware”. The regulator is meant to provide science-based and independent advice. A source at Natural England said the idea was “ridiculous” as its advice was meant to be “based on the science, not on anything else”.

The watchdog’s ecologists will also get out less to see the wildlife and habitats they are meant to protect and understand.

“Fewer ad hoc site visits will be necessary because more information, data and evidence about sites and the local area will be captured remotely and by others,” says the document. Conservationists warned earlier this year that Natural England risked losing its “eyes and ears” after it cut funding for local environmental record centres.

In order to raise more money as its budget is cut £30m by the end of 2020 on 2015-16 levels, the agency also plans to raise more money by charging the private sector, such as water companies, housebuilders and windfarm developers, for its services. It raised £1.43m in 2015-16 by charging £110 an hour for such services, and hopes to increase this to £12m a year by 2020.

“It’s blurring the vision of what we do,” a source at Natural England said. “It’s commercialising something that’s very hard to commercialise. People find it quite a conflict in what they do. Previously we would prioritise what is important in terms of biodiversity rather than profit, so it’s quite a different mindset.”

The agency tried to allay such fears in another document shared with staff. “There were some concerns that a move towards charging might be perceived as a shift towards ‘supporting development’, with us working for, rather than with, our customers. Thankfully, that criticism has rarely been directed at us,” it said. …”