As a developer i have had to look for other options waiting for this feature since i started using github. I tried out Marxico and Inkdrop which im paying for still. But these are still, complementary tools. Native support for MD in Evernote would just be heaven. Nowadays i mostly use github wikis for the technical aspects of my notes and Inkdrop everytime I'm inspired to document my current level of understanding about some technical issue. Inkdrop is a very close contender to Evernote for this purpose.