If you weren’t looking for it, you might have completely missed language on the Obama transition website (Change.Gov) pledging not to discriminate on the basis of gender identity, among other things. On the page regarding those who seek appointments to this administration, you’ll find the following language:
The Obama-Biden Transition Project does not discriminate on the basis of race, color, religion, sex, age, national origin, veteran status, sexual orientation, gender identity, disability, or any other basis of discrimination prohibited by law. (emphasis added)
According to employment lawyer Daniel Schwartz, who was quoted in an NPR report, gender identity nondiscrimination has never been part of federal hiring policies before, and expects that this pledge by Obama will form the basis of an executive order when the new administration starts. The ACLU issued a statement praising this language, as well.