We also call elections before all the votes are counted here in the US. Morales did win that election, the suspicious patterns that were reported were bogus. The NYT had to issue a retraction over it, despite the fact that coverage at the time pointed out exactly the flaws mentioned later.

You're also leaving out that Morales resigned and fled the country. And the fact that after the "interim government" was dissolved, Morales' very same political party won again.