On a desktop, the USB port's GND signal is usually at the GND level of the electrical equipment in the building. So even if the USB device has isolated power and is isolated from ground, that isolation will be bypassed by the USB connection. In some cases this is undesirable, for example for measuring equipment it may be necessary to use some potential in the circuit as a reference rather than a common ground. In addition, if the USB device experiences an electrical failure, there will also be problems with the direct connection of the 5V and GND lines between the USB device and the PC. For example. If a measuring device experiences a catastrophic short circuit, it can damage the PC. So there are good reasons to use USB isolators - it's just that they are often expensive. Likewise, most of them cannot provide connected USB devices. Typically you need to connect a power supply on the USB slave side (behind the isolation barrier) which is not very convenient.
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