Lisa, very good question.
Can look at how was it done in HIV science (Dr. Mikovits' hypothesis is XMRV is to CFS/ME as HIV is to AIDS).
UK HIV charity AVERT's website summarizes the evidence proving the virus, HIV, causes AIDS:
www.avert.org/evidence.htm
An excerpt from AVERT's summary:
How can we prove that HIV causes AIDS?
Koch's Postulates
In the nineteenth century, the German scientist Robert Koch developed a set of four "postulates" to guide people
trying to prove that a germ causes disease. Scientists agree that if HIV satisfies all of these conditions with regard to AIDS then it must be the cause of AIDS:15
Koch 1: The germ must be found in every person with the disease
Koch 2: The germ must be isolated from someone who has the disease and grown in pure culture
Koch 3: The germ must cause the disease when introduced into a healthy person
Koch 4: The germ must be re-isolated from the infected person
Other evidence
Even Koch recognized that in some cases not all of his conditions could be met, so other evidence should also be considered.
This is particularly true when the germ is a virus rather than a bacterium.16 Modern scientists are willing to consider a wide range of evidence. In particular, we can ask five key questions:
Do surveillance statistics show a relationship between HIV and AIDS?
How well does HIV infection predict illness?
Do drugs designed to combat HIV benefit people with AIDS?
Are there any credible causes besides HIV?
What can we learn from Africa?
You can read more by going to the website.
Gemini