Professor Savolainen is a Fellow of the Zoological Society of London, Fellow of the Linnean Society of London, and a Fellow of the Royal Society of Biology. In 2006, he was awarded the Linnean Society’s Bicentenary Medal. In 2008, he was awarded a European Research Council Advanced Grant, and the following year a Royal Society Wolfson Research Merit Award. In 2014, he was elected a Member of EMBO, and was awarded the Coincy Medal for Botany. In 2015, he was listed in Reuters World's Most Influential Scientific Minds for publishing some of the greatest numbers of highly cited papers in plant and animal science during 2003-2013. Professor Savolainen sits on various panels and advisory committees, including the UK Natural Environment Research Council Peer Review College and the Royal Society International Committees.

His group combines field ecology, molecular phylogenetics, and population genomic approaches to key societal challenges, from explaining the origin of biodiversity to finding solutions for its preservation in a rapidly changing world. Recent research also tackles the Darwinian paradox of sexual orientation.