I have the fan on my 980ti Superclocked+ ACX 2.0 to start at 60 degrees at 40% of the fan speed.  I put it at 40% because between 35-39 it makes an annoying noise, so I put it just to jump over all those numbers.
 
Sometimes when im playing a game, the temperature of the card will hover between 59 and 60 degrees.  The fan will turn on, go to 40%, cool down a degree, turnoff, and then turn on again about 5 seconds later as the heat increases.

My question is, is this constant starting and stopping of the fan every few seconds bad for the card in anyway?

it's not bad for the card and nothing you should worry about.
it could be annoying for you so maybe it'd be better to do some fine adjustments as HumboldtEF suggested.