And though not visually exciting..wouldn't a vasectomy have done the job just as well, without ending Eddie's life?
Down the track yes, but not then and there. No time, no-one to do the procedure and Eobard Thawne would attempted to stop it.
Plus he'd it would have allowed him to return to the future where he'd again have access to time technology and who knows what he'd do.
Also can see how they can keep Tom Cavanaugh though could be construed as a reset.
Timeline 1 - The original Wells was going to build star labs (in fact we know he did in E.Thawne's original time line).
Timeline 2 - Thawne travels back in time to beat The Flash and took Well's body and proceeded to build star labs when he failed.
Timeline 3 - Now Thawne has been wiped from time so he can't have travel. So the original harisson Wells lives to build his dream but Barry Allen has become the flash much sooner.
And with that it's no wonder time travel and paradoxes gave Kathryn Janeway headaches