Hi @Conrise and welcome to the Joulescope forum!
Yes, your proposed setup of IC output to JS110’s IN+ and JS110’s OUT+ to IC input should work. You can optionally connected either IN- or OUT- to your target system ground to measure the signal voltage level, too.
For reference, here is the simplified block diagram of your JS110:
One potential concern is autoranging. It is very easy for a signal to exceed the JS110’s autoranging bandwith, which can cause it to have autorange more than necessary significantly decreasing accuracy. The JS110 is unable to measure for up to 5 µs following a current range switch. The JS220 features our newer Enwavity™ technology which measures through the current range changes.
If you notice excessive current range changes, you can either manually select a fixed range or add some capacitance between the IC input and ground. Several µF is enough, but depending upon this signal, even this amount could prevent proper operation of your circuit.
Does this make sense?
I am happy to take a closer look at what you are actually seeing. Post a picture of the Waveform widget during typical operation, and please enable the current range signal r, too. If you would rather not post this publically, feel free to DM me!