You can use runtime binding redirect for the assemblies which are changed, if change is only in plugin assembly version.
<configuration>
<runtime>
<assemblyBinding xmlns="urn:schemas-microsoft-com:asm.v1">
<dependentAssembly>
<assemblyIdentity name="myAssembly"
publicKeyToken="32ab4ba45e0a69a1"
culture="neutral" />
<bindingRedirect oldVersion="1.0.0.0"
newVersion="2.0.0.0"/>
</dependentAssembly>
</assemblyBinding>
</runtime>
</configuration>
You can provide updates via separate patch(zip file). (No need for install/uninstall).