Toro TFS-100 Flow Sensor DEAD?

We had a lightning storm last week that knocked out my Rachio 3 controller as well as busted our water main. I have since replaced the controller and migrated my settings from the previous controller over. Water main was fixed today so I tested out the system. I noticed the flow sensor was not sending any readings to the new controller. I made sure to label and take pictures of the previous controller before installing the new. I put the same TFS wires in S1 and -24VAC as they were before. I immediately thought great my TFS-100 got fried as well, but I tested continuity with a multimeter on the wires going into the controller and they show the unit is good. What am I missing here? TIA