I get these results:

Input with C:

C 1010
K Perl
K is
K cool
F 1234
S Alright
R Whatever
R More
R BlaBla
[download]

Output with C:

<c>
<p>%Perl,%is,%cool</p>
<t>
<setflag param="1234"/>
<set name="temant">Alright</set>
<r>
<li>Whatever</li>
<li>More</li>
<li>BlaBla</li>
</r>
</t>
</c>
[download]

Input with I:

I 1010
K _EXE
F 1234
R Whatever
R More
R BlaBla
[download]

Output with I:

<c>
<p>_EXE</p>
<t>
<ifflag param="1010">
<then>
<setflag param="1234"/>
<r>
<li>Whatever</li>
<li>More</li>
<li>BlaBla</li>
</then>
</ifflag>
</r>
</t>
</c>
[download]

Input special case:

K Special
K Case
R One
R Two
R Three
[download]

Output special case:

<c>
<p>%Special,%Case</p>
<t>
<r>
<li>One</li>
<li>Two</li>
<li>Three </li>
</r>
</t>
</c>
[download]

Is this what you get?