Agree completely. I feel what's happened is he looked at the few games(4 at most) last season where the team struggled to break teams down and needed a last minute goal to win. He probably feels in those games the team struggled to get men in the box and relied to heavily on the wingers(sane/sterling) as well as de bruyne and silva to unlock the opposition so to counter that he's tried experimenting with a 2 up front formation. The problem is doing that has also opened a new set of problems that the team didn't have last season.
What you have this season and especially the past 2 games against wolves and newcastle(1st half) is a formation that is basically a 3-1-6. You have your 3 defenders with dinho ahead of them and then 6 attackers with mendy joining in as another attacker on the left hand side. what has happened as a result is that a lot of players keep taking eachothers spaces, there's no set pattern of play like last season with the links between de-bruyne/silva and sterling/sane that were developing. the likes of silva can't get the ball in the half-spaces, turn and have options of runners ahead of him instead you have players often coming deep and receiving the ball with their backs to goal especially the wingers as was the case yesterday. So its left up to an individual brilliance or a mistake by the opposition for a goal to come instead of any fluid style of play.
But that is just the attacking side, what this new formation has done is left the team unable to both press effectively to win the ball back when they lose it and also able to retain possession and sustain attacks. As a result the opposition seems to always have an avenue to exploit on the counter when they win the ball. The match against wolves became an open one as a result and the 1st half yesterday especially after their goal was the same case. Look at the difference once bernardo came in for jesus and became an extra man in midfield and mendy was tasked with just sitting back and offering support instead of joining the attack at every opportunity. Even though there was only 1 goal in it, I never felt like the team would concede during those last 30 minutes when the team reverted back to the 4-3-3. I can count 3 or 4 games at most last season where you got the open game of that 1st half. The only hope teams had of scoring or creating a chance in 99% of the games was either through a set-piece or a wonderstrike/mistake by the team. Most teams could barely string 2 passes together when they had it and were always camped in their box including even the likes of chelsea.
That was the pattern last season, two wide men stretching the pitch and making it as wide as possible meaning spaces could be found in the half spaces by the likes of silva and de-bruyne who could recieve the ball, turn and have runners ahead of them doing what they do best. The team was always on the top, probing and creating chances and never looking in danger of being countered or conceding due to the fullbacks tucking inside almost as extra midfielder, as a result you always felt it a matter of when not if the goal would come. So when those late goals happened it wasn't against the run of play or anything unusual but rather a deserved one for the sustained pressure. I feel the team loses that structure and discipline with this new system.
And for those arguing the team needs to reinvent itself as to not stagnate, that doesn't necessarily mean in a change of system but rather in a change of player profile/quality. The more competition with added quality the team has the more it will strive to get better not by changing a system that clearly worked and wasn't able to be figured out by any team in the premier league or europe outside of liverpool.
The greatest domestic teams of the modern era that went on to dominate their leagues for multiple seasons did so without needing to reinvent or change their system. Conte's juve stuck with a 3-5-2 formation throughout his time there and they dominated the league for 3 seasons, likewise the united team that won 3 titles in a row did so with a 4-4-2 formation. Nothing about each of those teams' systems changed. Which brings it to the main point, pep is clearly someone who is quite obsessive and sometimes tends to overthink things and this may be the case this season.
The formation and system didn't need any changes, it just needed more competition for places to keep the players on their toes. He even started the season against both chelsea and arsenal at the emirates with the same 4-3-3 formation/system of last season but just with different personnel and they didn't seem to struggle. In fact they barely got out of second gear in both games to win them comfortably and rarely looked like conceding. This tinkering these past 2 games has clearly unbalanced the side and its rhythm so why not just get back to what had just contributed to a record breaking season unheard of in this league. Yes I know its early but if the experimenting continues the next few games I'm afraid there may be some more dropped points against teams the team should be beating comfortably.