There's certainly no shortage of wuxia stories set during the Qing Dynasty. It would also be inaccurate to say that Qing-era wuxia stories are generally unpopular because, after all, DOMD, CROUCHING TIGER HIDDEN DRAGON, and the LUI 4 LEUNG series are quite popular and well-known among wuxia fans.
That being said, overall, Qing-era wuxia stories seem to be less popular than those set in earlier periods of Chinese history. Witness how little discussion there is on Qing-era wuxia stories at this forum compared to for stories set in earlier eras.
What is your personal disposition towards wuxia stories set during the Qing Dynasty?