Hello, original link syntax:

/DisplayArticle.do?				dt=<xsl:value-of 
select="java:bridges.framework.util.URLEncoder.encode
(internal-web-link/@dt)"/>&amp;
				dn=<xsl:value-of 
select="java:bridges.framework.util.URLEncoder.encode( 
java:bridges.framework.util.StringUtil.replace( string
(internal-web-link/@dn), '?', '_') )"/>&amp;
				cn=<xsl:value-of 
select="java:bridges.framework.util.URLEncoder.encode
(internal-web-link/@cn)"


would result in a link:

<a href="
                                        /student
                                /DisplayArticle.do?                               
dt=Education%20Link&amp;
                                dn=Discovery%20Online&amp;
                                cn=main">Discovery 
Online</a>

If the whitespace is being stripped then maybe the issue is 
the cariage returns??
Thanks!