The Western Health Trust has announced a temporary halt to emergency general surgery at the facility.
Professor Mark Taylor told the BBC most patients would not be impacted.
Speaking to Sunday Politics he said "we have to look at the facts" in relation to the withdrawal of services.
The Western Trust said it was necessary to protect the public's safety after it had problems recruiting surgical staff.
Despite saying the move was temporary, the trust did not say when it expected emergency general surgery would resume.
The emergency department and other services including obstetrics will continue to operate as normal.
In a further move it has been confirmed the hospital is to become Northern Ireland's third elective surgical hub.
Also appearing on the programme, DUP's Deborah Erskine said she thought the creation of an elective surgical hub would secure the future of the hospital. But she said she was concerned by how the removal of general surgery had been messaged to the public.
"The Western Trust hasn't levelled with the public locally to say what is going on," she added.
"People are angry, frustrated, they're worried, they're concerned. As a public representative I do share concerns... what I want to see is the best outcomes for patients and staff."
Colm Gildernew said he supported properly planned transformation of services at SWAH but it has to be "on the basis of co-production with people in health, communities, workers, all of those".
Ms Erskine also told the programme that she was "very concerned" about the potential loss of GP services elsewhere in Country Fermanagh.
Maple Healthcare in Lisnaskea said it was handing back its contract to the Department of Health.
Confirming the news on Saturday, the department reassured patients that services would continue at the practice for the next six months.
"The thing I'm most concerned about is that I had staff who got in touch with me yesterday who did not know this news until it broke on the media."
She said she wanted to establish the facts about what is happening, adding pressure on GP services was not a "new issue".
Mr Gildernew said there was an urgent need to find a solution.
"We have six months and what we need is a health minister and an executive," he added.