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A few points. 1. Make absolute sure your site is clear of Malware. Check Google Webmaster Tools and I also recommend running your URL through the Securi checker  (the scan is free, and the service is worth it if you were hit) http://sucuri.net/ 2. After a malware hit, Google recommends you use the "Crawl as Googlebot" in Google Webmaster Tools and then select "Submit this page and all linked pages to Index" option. 3. Make sure your sitemaps are up to date and properly submitted via Google Webmaster Tools. 4. I did notice in your question that you disavowed links. If you disavowed links that were actually helping you this could have had a negative effect on your rankings. Unfortunately, I don't know of a way to get these back. It's possible your drop has nothing to do with the Malware - it could be just an unfortunate coincidence. Do a site audit, check your crawl errors, try to match your traffic drop against known Google updates, and stay vigilant about improving your content and outreach. No definite answers here, but I hope this background helps. Best of luck with your site!