I'm using a MKR Connection Carrier with a MKR1010 WiFi. As I read this page https://www.arduino.cc/en/Guide/MKRConnectorCarrier, the pins of the D0 Grove connector should be arranged as [D0 D1 VCC GND]. However, from the schematic, and probing around with a multimeter, the secondary I/O pin is a dummy, and not connected to anything on the board.
Yeah, you're right. The D5/D6 connector is actually wired in this manner. It's possible that the "Getting Started" tutorial was trying to convey this, but it's certainly not as clear as it might be.