In Alfresco 5.0.b har been introduced which has a different (better!) SOLR folder layout. It is slightly different, so to reindex a SOLR4 instance in Alfresco 5.0.b. You should delete or move alf_data/solr4/*. This takes care of cached content nodes, models, and index.
SOLR data/indexes
<ALF_DATA>/solr4 or normally <ALFRESCO_HOME>/alf_data/solr4
BTW SOLR4 configuration is now in alfresco root <ALFRESCO_HOME>/solr4
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