Besides the Robertson and Gwynne biographies (which I haven't read, but have good reputations) there is Shenandoah 1862 by Peter Cozzens which covers Stonewall in the Valley. It deconstructs a lot of the mythos surrounding Jackson's famous campaign there.
Hennessey's Return To Bull Run remains the best work on Second Manassas, of which Jackson played a key role. Herdegen's Opening Manassas recently came out, focused on Jackson's attack at Brawner's Farm to start the battle. I think there is supposed to be a new book in the works about Cedar Mountain.
Lively's Calamity at Chancellorsville and Mackowski's The Last Days of Stonewall Jackson give two different looks at Jackson's wounding and death.
There's Henry Kyd Douglas' memoir, I Rode with Stonewall, which will give you the perspective of one of his aides, although the book has been lampooned by some as "Stonewall Rode With Me."