I test drove and loved both of them, they were my top two machines and I'd be happy with either of them BUT when the lightning stitch was engaged on the Innova while I was doing some micro stippling - it won hands down.
So ... did you test drive an Innova with lightning stitch? If not, you might want to do that.
Also, the Innova has a couching attachment that is pretty cool.
That said, I would never turn down an APQS. They're very nice machines.