I timed a few things and it doesn't seem like the overclocking affects Spyro loads too much aside from small gains on cutscenes. ePSXe 2.0 still has a big gain over SDS by default.
I did some timing for Spyro 3 comparing epsxe versions. 1.9.25 and 2.0 are extremely similar in load times and both faster than 1.9.0 by a considerable margin.
epsxe1.9.25 and 2.0 save:
13.5s in any% 17.7s in 100 egg 24.1s in 117%
I don't know what the ruling on this should be, but 1.9.0 is closest to SDS for loads. If we're going to restrict emulators due to inaccuracies then there should be a single approved version of epsxe.
I timed some things throughout the games to see how much time the PSTV/Vita actually saves over PS2.
Here's my results.
Spyro 1 is the same due to levels loading during set animations. It's worth noting that there is some additional framerate lag for Spyro 2 on Vita that is not present on PS2.