SVG to PDF/AI gradient and transparency issues

This is probably quite off topic for these forums, so apologies for that up front, but I can't seem to get answers in more appropriate places.
I am trying to use inkscape or rsvg-convert, which both use cairo, to convert SVG to PDF.
Firstly, when I open the SVG in Illustrator directly, everything works as expected, but the cairo converted PDF has a couple of problems.
Typically I get "An unknown  shading type was encountered" and the offending shapes are un-editable  "images" with a clipping mask over them.
There are two  circumstances that result in problems for me.
1) A gradient with  only 2 stops.
In the following example I have duplicated the  offset="0" stop which fixes things and means that the resulting shape  that is filled with this gradient works fine. Without the duplicate  declaration, the gradient is converted to  an un-editable image with a  clipping mask when the PDF is viewed in Illustrator.
   <linearGradient id="ian_symbols_b8a58aafc1f12e74492e9e865b7f569b"  gradientUnits="userSpaceOnUse" x1="113.7275" y1="136.9414" x2="197.0259"  y2="136.9414">
    <stop offset="0" style="stop-color:#927A62"  id="stop1472" />
    <stop offset="0"  style="stop-color:#927A62" id="stop1472_dup" />
    <stop  offset="1" style="stop-color:#93866F" id="stop1474" />
   </linearGradient>
2) A shape that has  an opacity that is less than "1". I don't know how to fix this one and  still maintain the look of the original. I understand that there are  some issues with transparency and the PDF format, but obviously the full  AI version of the PDF format these days supports transparency.
Does anyone have any experience doing server-side conversions of SVG to PDF and have managed to create a PDF which contains gradients and transparency that are actually editable once opened in Illustrator?
Or does anyone know if there is something more I  can do with the original SVG code to make the opacity work ok in the  final PDF?
Thanks

Works fine for me as .ai with pdf comptible turned on. You may have input transparency in the wrong location in Illustrator. Change opacity in the gradient palette, and not tint in the color palette.
Opacity is 0 here, anything less tha 100% will create tranaprency. To proof in Illustratopr do a Shift Command D to change your background to a checkerboard pattern.

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