Johnnyb53 has got it right. The power supplies are the big issue- that and the way the grounds are set up. It is very easy to get crosstalk in integrated amps, in a way similar to to the way ground loops occur.
It is possible to build an integrated that gets around this, and if it is done, you will see a separate power transformer for each channel. If you don't see that in the integrated then you will be able to find separates that out-performs it.
I find that the main advantage of separates is the setup of the system. Its to your advantage to keep your speaker cables short- it can have a huge effect on impact and definition. Monoblock amplifiers allow just that, and especially if your preamp can drive long interconnects, you can place the preamp and the front end components in the room where they are least affected by bass, have the best WAF, or are the most convenient.
Integrated amps force you to place the amp between the speakers, often with longer speaker cables which means that even a great integrated may not be able to strut its stuff simply on account of longer speaker cables!
It is possible to build an integrated that gets around this, and if it is done, you will see a separate power transformer for each channel. If you don't see that in the integrated then you will be able to find separates that out-performs it.
I find that the main advantage of separates is the setup of the system. Its to your advantage to keep your speaker cables short- it can have a huge effect on impact and definition. Monoblock amplifiers allow just that, and especially if your preamp can drive long interconnects, you can place the preamp and the front end components in the room where they are least affected by bass, have the best WAF, or are the most convenient.
Integrated amps force you to place the amp between the speakers, often with longer speaker cables which means that even a great integrated may not be able to strut its stuff simply on account of longer speaker cables!