Council chairman Rex Graham said it had taken a long time for these areas to reach their current condition.
"It's going to take some investment and energy to turn the clock back."
Councillor Neil Kirton said the proposed rate rise asked Hawke's Bay residents to "recognise the crisis that we're in," an urgent call to clean up waterways.
There were water issues from one end of Hawke's Bay to the other, and the rise was a call to action to recognise these, and that the regional council was ready to respond."
Councillor Tom Belford said this would be a wake-up call for ratepayers, who would have to come to terms with what it cost to deal with environmental issues.
The move would increase regional rates by between $33 and $15 for urban areas, including $3 for Flaxmere, $15 in Wairoa and $16.80 in CHB.
If the council's 2017-2018 draft annual plan is adopted unchanged after public consultation, from April 10 to May 12, the rates increase will take effect from July 1.