Elections to Ellesmere Port and Neston Borough Council were held on 6 May 1999. The whole council was up for election with boundary changes since the last election in 1998 increasing the number of seats by 3. The Labour Party stayed in overall control of the council.
Results edit
| Party | Seats | Gains | Losses | Net gain/loss | Seats % | Votes % | Votes | +/− | |
|---|---|---|---|---|---|---|---|---|---|
| Labour | 38 | +2 | 86.4 | ||||||
| Conservative | 5 | 0 | 11.4 | ||||||
| Liberal Democrats | 1 | +1 | 2.3 | ||||||