There are two options available here (customer chose #2)
1 - increase the metric limit by uncommenting and modifying the following property value in the agent profile
#introscope.agent.perfmon.metric.limit=1000
care should be taken though as querying the perfmon counters can affect system performance if excessive
2 - filter the metrics collected - do you need / are you interested in all the counters that re reported by default - would it make more sense to cut back on what is currently reported from the existing property value
introscope.agent.perfmon.metric.filterPattern=|Processor|*|*,|.NET Data Provider*|*|*,|.NET CLR*|{osprocessname}|*,|.NET CLR Data|*|*,|Process|{osprocessname}|*,|ASP.NET*|*,|MSMQ Queue|*|*