There is no Halachic objection to women handling a Sefer Torah -- even if they happen to be Niddah. A Sefer Torah is not mekabel tuma. Some Orthodox Rabbis permit women to lain at a women's service, but this is a minority view. The Kotel follows Minhag Yerushalayim and therefore the High Court ruled against women laining or donning tefillin at the Kotel. Every holy place has its own rules and etiquette and no one thinks twice about observing the relevant courtesy. Men take off hats in churches, and women cover their hair in some synagogues and churches. In traditional synagogues men and women sit separate and no one demonstrates against it. The High Court gave Robinsons's Arch for non-Orthodox services and these women lack the basic courtesy to abide by the High Court ruling.
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from the article: Police arrest Women of the Wall leader for praying with Torah scroll