Seeing Captain America drop into the combat zone followed by the Avengers and the telltale signs that blustering brute Thor was coming Red Skull withdrew all of the Rotejägers from the battle. They promptly teleported out, Johann had seen multiple times how getting pincered by Avengers and SHIELD tended to result in catastrophic troop losses and so he wasn't willing to sacrifice his best men only to need them at a later time.
Relieving the Rotejägers were a host of HYDRA infantry and Dreadnoughts. Strucker wasn't walking away from this one that much was for sure so the question would be would he be arrested before Viper could kill him? Noticing a distinct lack of Zemo was something he felt uneasy about.