Looks like I figured it out. It is not really apparent to a newbie on WiX
though so hopefully it saves someone else pain. In the
BootstrapperCore.config you have:
<startup useLegacyV2RuntimeActivationPolicy="true">
<supportedRuntime version="v2.0.50727" />
<supportedRuntime version="v4.0" />
</startup>
Remove the v2 runtime line and the Bootstrapper will install v4 before
moving on. Hope this helps someone
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