On July 21st, the FDA identified a jalapeno at a produce distribution center in Texas that was contaminated with Salmonella saintpaul, which is the strain of Salmonella that has been causing an outbreak in the US since April. Due to this discovery, all fresh jalapenos have now been recalled.
So, on the heels of the announcement that all tomatoes have been cleared of suspicion, we now should not be eating raw jalapenos or products containing raw jalapenos. Since Mexican is one of my favorite types of food, the fact that I can't enjoy salsa right now makes me quite sad. But I would rather be safe than sorry of course.
The FDA is also recommending that those who are at high risk for complications from salmonella poisoning avoid fresh serrano peppers in addition to jalapenos.