Which of these is actually right?
Both. From reading the abstract it appears the papper doesn't claim that "VFactor" or Fermat Factorization ("FFM") or Trial Division ("TDM") are the best methods in general. However, if the difference between primes $p,q$ with $n=pq$ is really small, like $\ll2^{100}$$\;\dagger$, then FFM (and probably the VFactor variants as well) will be a lot faster.
Though in general the difference between two same-length random primes is about $\sqrt{n}/2$ which is about $2^{1024}$ for realistically sized moduli, so these attacks don't work there. Even with 400-bit moduli, which are somewhat easily crackable using a home desktop using the GNFS, this difference is still about $2^{200}$ and thus way too large.
Of course the implementation of the key generation may be faulty and emit primes in a too small interval and it's in these cases where these specialized algorithms really shine.
$\dagger$: "$\ll$" meaning "a lot less" here