As the game went into injury-time, Liverpool grabbed a lifeline when Neville dived to palm away Lucas' shot.
Johnson could have scored his second immediately after the break when Phil Neville set the England striker free.
BBC: Andrew Johnson and Yakubu celebrate Everton's first goal
The hosts, full of graft and bite, hit back immediately when Phil Neville lashed a low drive into Blues keeper Petr Cech's arms before Cahill and Marouane Fellaini had headed attempts on goal.
The 40, 188 crowd were treated to a terrific thriller at Villa, although the first effort on goal did not arrive until the 17th minute when Phil Neville hit a cracking half-volley that Brad Friedel had to tip behind.
"Absolutely no chance, " said Ferguson, when asked whether Neville would have been charged if he played elsewhere.
BBC: SPORT | Football | My Club | Man Utd | Neville FA charge angers Ferguson
Against the run of play early in the second half, Everton added a third when Pienaar collected Neville's pass, turned, then curled a magnificent effort from 20 yards.
The dead man, a 35-year-old from Calderdale, was walking on a bridge over the Aire on Neville Street when a curtain-sided lorry toppled over on Thursday afternoon.
They won 2-1 at West Bromwich Albion but could have had Gary Neville sent off when he brought down Graham Dorrans.
With Everton rattled, Wes Hoolahan squandered a great chance to make it 2-0 when he profited from a Neville slip, but overhit his cross.
Arsenal took full advantage of the reprieve to take the lead five minutes later, when Nasri's shot took a crucial deflection off Neville and wrong-footed Edwin van der Sar.
They're all Millar, claims Neville, who has accused his rival of sock puppeting - when authors take on pseudonyms to laud their own books in online reviews or to do down the opposition.
Patrice Evra, Gary Neville, Park Ji-Sung and Paul Scholes were warming down when they were asked to move by groundstaff, sparking a row.
Ferguson mistakenly thought Park had recently agreed an extension but, like Neville, insists the former PSV Eindhoven player will get a new deal when the time is right.
Former Villa striker Dwight Yorke, who was booed when he touched the ball, lined up in midfield for the champions alongside Phil Neville, while Danny Higginbotham made his first start in four months at left-back.
On Tuesday, in giving evidence to the select committee, Mr Murdoch went further: he said that the "for Neville" email had been concealed from him by Mr Crone and Mr Myler, when he authorised the settlement with Mr Taylor.
"I have always operated under the strict guidance and advice of News International's lawyers and under the instructions of the newspaper's editors which will be abundantly clear when this matter comes to court, " one-time News of the World chief reporter Neville Thurlbeck said on his blog.
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