I believe you will need this patch also to build reference policy.

[Daniel J Walsh <dwalsh@redhat.com>]

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Otherwise you end up with a conflict.
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diff --git a/checkpolicy/policy_scan.l b/checkpolicy/policy_scan.l
index 427c189..1331c04 100644
--- a/checkpolicy/policy_scan.l
+++ b/checkpolicy/policy_scan.l
@@ -219,10 +219,11 @@ PERMISSIVE			{ return(PERMISSIVE); }
 {letter}({alnum}|[_\-])*([\.]?({alnum}|[_\-]))*	{ return(IDENTIFIER); }
 {digit}+|0x{hexval}+            { return(NUMBER); }
 {alnum}*                        { return(FILENAME); }
+\.({alnum}|[_\.\-])*	        { return(FILENAME); }
 {digit}{1,3}(\.{digit}{1,3}){3}    { return(IPV4_ADDR); }
 {hexval}{0,4}":"{hexval}{0,4}":"({hexval}|[:.])*  { return(IPV6_ADDR); }
 {digit}+(\.({alnum}|[_.])*)?    { return(VERSION_IDENTIFIER); }
-{alnum}+([_\.]|{alnum})+      { return(FILENAME); }
+{letter}+([-_\.]|{alnum})+      { return(FILENAME); }
 ([_\.]){alnum}+                 { return(FILENAME); }
 #line[ ]1[ ]\"[^\n]*\"		{ set_source_file(yytext+9); }
 #line[ ]{digit}+	        { source_lineno = atoi(yytext+6)-1; }

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