Could you please export and post here the whole configuration ? (by "/export hide-sensitive file=config" command) ?
Generally, bridge/PPPoE interface is a virtual interface upon physical ether1 port of your Mikrotik. When change to fiber modem, you should set correct addresses (or DHCP clients (by "/ip dhcp-client add interface=ether1 disabled=no default-route-distance=1" command )) on your ether1 interface directly. You should also set correct default gateway, correct interface in scrnat NAT chain (ether1 instead of PPPoE) and change the input firewall rules to block unwanted traffic on your ether1 port.
Also, when "192.168.0.9 and 192.168.0.2" are on the same subnet (I assume /24 mask), the same subnet cannot be on WAN and LAN simutanelously. If you want to have the same subnet on fiber modem LAN interface and on the Mikrotik LAN interface, you should connect the fibre modem to the Mikrotiks LAN, not WAN interface (and disable DHCP server on Mikrotik to make sure Mikrotik will act as sole AP).
You want you Mikrotik to act as a router and AP, or only as AP?
# aug/12/2018 22:34:36 by RouterOS 6.42.6
# software id = CLL5-S1LL
#
# model = RouterBOARD 750G r3
# serial number = 6F3807BEF965
/interface bridge
add admin-mac=64:D1:54:04:A8:08 auto-mac=no comment=\
"created from master port" name=bridge1 protocol-mode=none
/interface ethernet
set [ find default-name=ether2 ] name=ether2-master
/interface list
add exclude=dynamic name=discover
add name=mactel
add name=mac-winbox
add name=WAN
/interface wireless security-profiles
set [ find default=yes ] supplicant-identity=MikroTik
/ip firewall layer7-protocol
add comment="Block Torrents" name=block-torrents regexp="^(\\x13bittorrent pro\
tocol|azver\\x01\$|get /scrape\\\?info_hash=get /announce\\\?info_hash=|ge\
t /client/bitcomet/|GET /data\\\?fid=)|d1:ad2:id20:|\\x08'7P\\)[RP]"
/ip hotspot profile
set [ find default=yes ] html-directory=flash/hotspot
/ip pool
add name=dhcp ranges=192.168.0.100-192.168.0.150
add name=vpn ranges=192.168.89.2-192.168.89.255
/ip dhcp-server
add address-pool=dhcp authoritative=after-2sec-delay disabled=no interface=\
bridge1 lease-time=12h name=defconf
/ppp profile
set *FFFFFFFE local-address=192.168.89.1 remote-address=vpn
/interface bridge port
add bridge=bridge1 interface=ether3
add bridge=bridge1 interface=ether4
add bridge=bridge1 interface=ether5
add bridge=bridge1 interface=ether2-master
/ip neighbor discovery-settings
set discover-interface-list=discover
/interface l2tp-server server
set use-ipsec=yes
/interface list member
add interface=bridge1 list=discover
add interface=ether3 list=discover
add interface=ether4 list=discover
add interface=ether5 list=discover
add interface=bridge1 list=mactel
add interface=bridge1 list=mac-winbox
add interface=ether1 list=WAN
/interface sstp-server server
set default-profile=default-encryption
/ip address
add address=192.168.0.9/24 comment=defconf interface=ether3 network=\
192.168.0.0
/ip cloud
set ddns-enabled=yes
/ip dhcp-client
add comment=defconf dhcp-options=hostname,clientid disabled=no interface=\
ether1
/ip dhcp-server lease
/ip dhcp-server network
add address=192.168.0.0/24 comment=defconf gateway=192.168.0.9 netmask=24
/ip dns
set allow-remote-requests=yes servers=1.1.1.1,1.0.0.1
/ip dns static
add address=192.168.0.9 name=router
/ip firewall address-list
add address=192.168.0.0/26 comment="allowed to access internet" list=\
allowed-add
/ip firewall filter
add action=accept chain=input comment="defconf: accept ICMP" protocol=icmp
add action=accept chain=input comment="defconf: accept established,related" \
connection-state=established,related
add action=accept chain=input comment="allow IPsec NAT" dst-port=4500 \
protocol=udp
add action=accept chain=input comment="allow IKE" dst-port=500 protocol=udp
add action=accept chain=input comment="allow l2tp" dst-port=1701 protocol=udp
add action=accept chain=input comment="allow pptp" dst-port=1723 protocol=tcp
add action=accept chain=input comment="allow sstp" dst-port=443 protocol=tcp
add action=drop chain=input comment="defconf: drop all from WAN" \
in-interface=ether1
add action=fasttrack-connection chain=forward comment="defconf: fasttrack" \
connection-state=established,related
add action=accept chain=forward comment="defconf: accept established,related" \
connection-state=established,related
add action=drop chain=forward comment="defconf: drop invalid" \
connection-state=invalid
add action=drop chain=forward comment=\
"defconf: drop all from WAN not DSTNATed" connection-nat-state=!dstnat \
connection-state=new in-interface=ether1
# p2p matcher is obsolete please use layer7 matcher instead
add action=add-src-to-address-list address-list=Torrent-Conn \
address-list-timeout=2m chain=forward p2p=all-p2p src-address=\
192.168.0.0/24 src-address-list=!allow-bit
add action=add-src-to-address-list address-list=Torrent-Conn \
address-list-timeout=2m chain=forward layer7-protocol=block-torrents \
src-address=192.168.0.0/24 src-address-list=!allow-bit
add action=drop chain=forward dst-port=\
!0-1024,8291,5900,5800,3389,14147,5222,59905,3030 protocol=tcp \
src-address-list=Torrent-Conn
add action=drop chain=forward dst-port=\
!0-1024,8291,5900,5800,3389,14147,5222,59905,3030 protocol=udp \
src-address-list=Torrent-Conn
add action=drop chain=forward disabled=yes src-mac-address=EC:1F:72:E3:C9:3D
/ip firewall nat
add action=masquerade chain=srcnat comment="defconf: masquerade" \
out-interface=ether1
add action=masquerade chain=srcnat comment="masq. vpn traffic" src-address=\
0.89.168.192-255.89.168.192
add action=masquerade chain=srcnat comment="masq. vpn traffic" src-address=\
0.89.168.192-255.89.168.192
add action=masquerade chain=srcnat comment="masq. vpn traffic" src-address=\
192.168.89.0/24
/ppp secret
add name=vpn
/system clock
set time-zone-name=Asia/Manila
/system routerboard settings
set silent-boot=no
/tool mac-server
set allowed-interface-list=mactel
/tool mac-server mac-winbox
set allowed-interface-list=mac-winbox