To me it looks like you might have pre outs from the "OUT" connections on the amplifier - the ones that are currently capped off. Those would connect to the respective left & right inputs on the subwoofer controller.
Unfortunately, the integrated amp does not appear to have main input connections for returning the high pass signal from the subwoofer controller. This does not mean all is lost, it just means your main speakers will run full range. That's not inherently a bad thing because it is no different than how it is now. In some cases, however, lightening the load on the amp and speakers using high pass filter can be a benefit.