怀塔哈企鹅（学名：Megadyptes waitaha）是一种已灭绝的企鹅，于2008年11月期间不经意地在研究新西兰的黄眼企鹅时识别出来。奥塔哥大学及阿德莱德大学的研究团体将一批500年及100年前的企鹅脚骨与现存的企鹅标本进行比对，预期所有脚骨均属于已知的黄眼企鹅。但500年前的这一批脚骨，却出现了不同的DNA排序，普遍大小也比黄眼企鹅小10%，相信是一种与黄眼企鹅相近但却独立的新种。由于当地毛利人对此物种全无纪录，因此研究团体估算怀塔哈企鹅应在公元1300年－1500年间面临绝种，大约是稍迟于毛利人到达新西兰的时间。是次报告发表在英国科学期刊《Proceedings of the Royal Society》上 。

The Waitaha penguin (Megadyptes waitaha) is an extinct species of New Zealand penguin discovered in November 2008.

The new species was discovered by University of Otago and University of Adelaide scientists comparing the foot bones of 500-year-old, 100-year-old and modern specimens of penguins. They were initially believed to have all belonged to the yellow-eyed penguin (Megadyptes antipodes), a species that has been threatened since human settlement. However, the 500-year-old subfossil bones yielded different DNA. According to lead researcher Sanne Boessenkool, Waitaha penguins "were around 10% smaller than the yellow-eyed penguin. The two species are very closely related, but we can't say if they had a yellow crown." "Our findings demonstrate that yellow-eyed penguins on mainland New Zealand are not a declining remnant of a previous abundant population, but came from the subantarctic relatively recently and replaced the extinct Waitaha penguin," said team member Dr Jeremy Austin, deputy director of the Australasian Centre for Ancient DNA.