SJWi,
Nope, no war wagons. I honestly don't think they had any if those are supposed to be like that of the much better organized Hussites fame. They did use wagons as a sort of defensive barricade to slow the SL attacks but not much evidence they were effective at all.
I do have some wagons which I will be using as part of my victory conditions (like loot filled wagons for various players to get off the table during a scenario).
Bigredbat,
Nice idea about no commanders, I believe they did have one professional soldier in command of one of the peasant bands for awhile, but he was there rather unwillingly and then deserted when he got the chance. I may do that though, give them very few or even no commanders.
Given the playtest battle, the peasants had a hard time of it already though

And yes I was intrigued by the history and I also like obscure wars so I wanted to this one. The big drawback though for those who want balanced games is the battles of the war were one-sided. I think the peasants won one battle late in the war, up in the mountains and it was an ambush of a column. Any formed pitched battle though and look out, peasants.
That said I'm enjoying myself immensely in this project and that's the point, right?
Oh and fanboy comment: I love TtS system - I use it for Republican Romans v.s. Gauls/Germans and Spanish, Mongols v.s. Sung Chinese, Teutonic Order vs Prussians, Early Crusades v.s Muslims, Great Italian Wars.