On the first floor of the City Mall, Metro Nova stocks a large selection of English books and newspapers, some books about Honduras [1], and books in Spanish by Honduran authors (among others).
The gift shop inside the Gran Hotel Sula [2] has a small collection of books about Honduras, mainly in Spanish but with some in English, as well as a decent magazine selection.
Links:
[1] http://www.moon.com/destinations/honduras
[2] http://www.moon.com/destinations/honduras/central-honduras/san-pedro-sula/accommodations/us100-and