The Hakluyts lived in a time of tremendous social change in England and elsewhere in Europe. The effects of enclosure were just beginning to be felt by English farmers, and people struggled to survive on farms. Many moved to cities, where overcrowding, poverty, and crime caused existential angst among London's elites. Hakluyt and many others saw colonization as a way to deal with this problem:

Yea, if wee woulde behold with the eye of pitie how al our Prisons are pestered and filled with able men to serve their Countrie, which for small roberies are dayly hanged up in great numbers...wee would hasten and further every man to his power of conducting of some Colonies of our superfluous people into these temperate and fertile partes of America...

Hakluyt and many of his contemporaries thus saw colonization as a way to relieve England of its social problems through the largely forcible removal of poor people, who would gain mutual benefit from the enterprise. The establishment of colonies would thus address major geopolitical and domestic problems facing England.

http://books.google.com/books?id=imcMAAAAIAAJ&printsec=frontcover&dq=Hakluyt&source=bl&ots=xodQQAXJvr&sig=pdj-abRaEwUm1laUC-nUYEr4wjQ&hl=en&sa=X&ei=yXn4T_3wLYic8gTymKzeBg&ved=0CEMQ6AEwAg#v=onepage&q=Hakluyt&f=false

If I remember this article correctly, they want to alleviate overcrowding and poverty.  The idea was that taking people out of England and sending them to the New World would give the poor in England a better chance to have a decent life.  This would have alleviated the crowding in English cities as well.