In the 2017 Queens Birthday Honours, Brooker was appointed a Member of the New Zealand Order of Merit, for services to science. Later that year, she won the Hector Medal from the Royal Society of New Zealand. Also in 2017, Brooker was selected as one of the Royal Society Te Apārangis "150 women in 150 words", celebrating the contributions of women to knowledge in New Zealand.
Brooker was elected a Fellow of the Royal Society of New Zealand in 2007, and a Fellow of the Royal Society of Chemistry in 2011. She is also a Fellow of the New Zealand Institute of Chemistry. In October 2019, Brooker was appointed one of seven inaugural sesquicentennial distinguished chairs, or , at Otago University. She was awarded the University's Distinguished Research Medal in 2015.