Either of those circuits will work. In either case, the voltage at the control pin will be sufficiently limited. In the case of the first, it's limited to -Vf of the diode, and in the second it's limited to basically nothing since the diode blocks.
The first arrangement, where the diode clamps any reverse voltage, works well when you also want to clamp the maximum input voltage, as you can use a suitably-rated TVS diode rather than a normal rectifier to provide reverse polarity and over voltage protection in a single device.
The second one, where the diode blocks any reverse voltage, has the advantage of not having to replace the fuse after a polarity reversal. If you were to use a polyswitch in place of the fuse in the first arrangement you'd have a similar advantage, but sizing the diode and poly switch so that the diode doesn't get cooked by the time the polyswitch trips can be tricky. This arrangement also has the disadvantage of a constant diode drop in series with the supply, which can result in significant power loss at high currents.
A variant of the blocking diode arrangement uses a FET in place of the diode, which can have a much lower voltage drop and hence lower dissipation.
Generally, clamping is preferable when the available fault energy is relatively low, but the fault voltage may be rather high. Note that energy matters as much as power, because there's a time component here. You can limit the energy even at quite high powers if you're willing to blow a fast fuse in the process, but when the protection is slow, then the time to trip becomes a major factor in selecting protection elements. When blocking, you have to make sure that the fault voltage will not exceed the breakdown voltage of the blocking device.