Isn't a contactor supposed to simply close once powered?
The Sevcon has a lot internal capacitors if the contactor just connect the battery to an "empty" Sevcon it produce an enormous current (it can damage the Sevcon).
The Sevcon has a precharge level setting and will only trigger the line conector when the level is reached. At the 2012 the Sevcon physically drove the Contactor coil. As much as I understand since 2013 every thing is handled through CAN communication. It will make timing much more complicated and the contactor is (maybe) driven from BMS or MBB.
I can see it with my 2013 FX - each battery has its own BMS (contactor) so it is really not easy to connect two powerful packs in parallel. Even when recharging it has to switch both pack on ( sometimes I can hear the relays clicking as they fight out which pack is more dominant
When a 2013+ is connected to the grid the contactor is closed (and the Sevcon is powered on you will see if you move the bike the motor will try to find the encoder position)
This will be the exception in your case
It takes some seconds before the voltage of the Sevcon drops - If you disconnect and start it maybe has still a closed contactor and you have no problem. (actually I always take care to wait till the contactor has opened before I switch on the bike I feared it will not be good if it has an overlapping but I guess your bike prove me wrong )