I guess i should post what i use now, for others to view.
<cffunction name="convert" access="public" returntype="string">
<cfargument name="latitude" required="yes" type="any">
<cfargument name="longitude" required="yes" type="any">
<cfset var lat = "">
<cfset var long = "">
<cfset lat = #replace(ARGUMENTS.latitude,".","")#>
<cfset long = #replace(ARGUMENTS.longitude,".","")#>
<cfset lat.substring(2,4)&"."&lat.substring(4,len(lat))>
<cfset long.substring(1,3)&"."&long.substring(3,len(long))>
<cfset coord = lat&","& long>
<cfreturn coord>
</cffunction>
<cfoutput>#convert("E12345.678","N1234.567")#</cfoutput>